Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold182
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 891401
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.32
Warning! 40281 characters in sequence are not A, C, G, or T
File 2 of 4
Found at i:335164 original size:17 final size:17
Alignment explanation
Indices: 335140--335179 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
335130 AGAATGAATT
335140 AAAAAGAAACAAAAAGA
1 AAAAAGAAACAAAAAGA
* *
335157 AGAAAGAAAGAAAAAGA
1 AAAAAGAAACAAAAAGA
335174 AAAAAG
1 AAAAAG
335180 GGAAAGAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAAAGAAACAAAAAGA
Found at i:336390 original size:16 final size:15
Alignment explanation
Indices: 336353--336406 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 15
336343 AGTTATATAC
336353 TCATGAATTGAGTAT
1 TCATGAATTGAGTAT
* *
336368 GTTATGAAATGATGTAT
1 -TCATGAATTGA-GTAT
336385 TCATGAATTGAGTAT
1 TCATGAATTGAGTAT
336400 TGCATGA
1 T-CATGA
336407 CTGATGCCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 5 0.16
16 23 0.72
17 4 0.12
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.39
Consensus pattern (15 bp):
TCATGAATTGAGTAT
Found at i:337156 original size:21 final size:22
Alignment explanation
Indices: 337116--337165 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
337106 CTGGCCCATA
*
337116 TTAA-ATTTTTTTATAAAATAT
1 TTAATATTATTTTATAAAATAT
337137 TT-ATATTATTTTA-AATAATAT
1 TTAATATTATTTTATAA-AATAT
337158 TTAATATT
1 TTAATATT
337166 TCAATATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 3 0.12
21 17 0.68
22 5 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TTAATATTATTTTATAAAATAT
Found at i:341978 original size:3 final size:3
Alignment explanation
Indices: 341970--341995 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
341960 GTATCAAAGA
341970 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
341996 CAAGTTCAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:360466 original size:220 final size:220
Alignment explanation
Indices: 359962--360451 Score: 836
Period size: 220 Copynumber: 2.2 Consensus size: 220
359952 GCAAGATTAC
*
359962 TGGTTGGTTGAGCAACAATCTTGGATCAATGATGACAAGAAAAATGCTAAGGATTGATGGGAAAA
1 TGGTTGGTTGAGCAGCAATCTTGGATCAATGATGACAAGAAAAATGCTAAGGATTGATGGGAAAA
* *
360027 CAACAATCTTGACCAACAATCTTGGGAAAAATTCTAAATGATTACATTTAGAATAAAGATAAGAT
66 CAACAATCTTCACCAACAATCTTGGGAAAAATTCTAAACGATTACATTTAGAATAAAGATAAGAT
*
360092 AAAACAACAATTCAAAGCTAGGATAAAAGATAATAACAAATATATTTGAATCTTTCAAATCCTAA
131 AAAACAACAATTCAAAACTAGGATAAAAGATAATAACAAATATATTTGAATCTTTCAAATCCTAA
* *
360157 GATCATTAGAACCCTGCAAATTTGA
196 GATCATTAGAACCCTGCAAAATAGA
* *
360182 TAGTTAGTTGAGCAGCAATCTTGGATCAATGATGACAAGAAAAATGCTAAGGATTGATGGGAAAA
1 TGGTTGGTTGAGCAGCAATCTTGGATCAATGATGACAAGAAAAATGCTAAGGATTGATGGGAAAA
*
360247 CAACAATCTTCAGCAACAATCTTGGGAAAAATTCTAAACGATTACATTTAGAATAAAGATAAGAT
66 CAACAATCTTCACCAACAATCTTGGGAAAAATTCTAAACGATTACATTTAGAATAAAGATAAGAT
*
360312 AAAACAATAATTCAAAACTAGGATAAAAGATAATAACAAATATATTTGAATCTTTCAAATCCTAA
131 AAAACAACAATTCAAAACTAGGATAAAAGATAATAACAAATATATTTGAATCTTTCAAATCCTAA
**
360377 GATCATTAGGCCCCTGCAAAATAGA
196 GATCATTAGAACCCTGCAAAATAGA
* * * *
360402 TGGTTGGTTGAGCAGCAATCTTGGATCGATGATGATAAAAAAAATACTAA
1 TGGTTGGTTGAGCAGCAATCTTGGATCAATGATGACAAGAAAAATGCTAA
360452 CAAATGAAGG
Statistics
Matches: 252, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
220 252 1.00
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.26
Consensus pattern (220 bp):
TGGTTGGTTGAGCAGCAATCTTGGATCAATGATGACAAGAAAAATGCTAAGGATTGATGGGAAAA
CAACAATCTTCACCAACAATCTTGGGAAAAATTCTAAACGATTACATTTAGAATAAAGATAAGAT
AAAACAACAATTCAAAACTAGGATAAAAGATAATAACAAATATATTTGAATCTTTCAAATCCTAA
GATCATTAGAACCCTGCAAAATAGA
Found at i:363404 original size:5 final size:5
Alignment explanation
Indices: 363369--363403 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
363359 AAGATGGCGC
* *
363369 TGAGT TGAGT TGAGT TGAGT TGAGT AGAGT AGAGT
1 TGAGT TGAGT TGAGT TGAGT TGAGT TGAGT TGAGT
363404 ACGGTTGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.26, C:0.00, G:0.40, T:0.34
Consensus pattern (5 bp):
TGAGT
Found at i:364949 original size:17 final size:17
Alignment explanation
Indices: 364927--364964 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
364917 ACATAGACTC
*
364927 TTTTTTT-TTATATACA
1 TTTTTTTGTAATATACA
*
364943 TTTTTTTGTAATATTCA
1 TTTTTTTGTAATATACA
364960 TTTTT
1 TTTTT
364965 AAATATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTTTTGTAATATACA
Found at i:365224 original size:20 final size:20
Alignment explanation
Indices: 365182--365224 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
365172 CCCTGAATAG
*
365182 TTTAGGGTTCGAGTTTGGGA
1 TTTAGGGTTCGAGTTTGGAA
*
365202 TTTAGGGTTCGAGTTTTGAA
1 TTTAGGGTTCGAGTTTGGAA
365222 TTT
1 TTT
365225 CAAGTTCAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.16, C:0.05, G:0.33, T:0.47
Consensus pattern (20 bp):
TTTAGGGTTCGAGTTTGGAA
Found at i:369796 original size:18 final size:18
Alignment explanation
Indices: 369765--369812 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
369755 TGTCGTTCGT
*
369765 TTTCAAAACATTATTC-A
1 TTTCAAAACGTTATTCAA
*
369782 TTTACAAATCGTTATTCAA
1 TTT-CAAAACGTTATTCAA
369801 TTTCAAAACGTT
1 TTTCAAAACGTT
369813 TTTTTATTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 19 0.73
19 4 0.15
ACGTcount: A:0.38, C:0.17, G:0.04, T:0.42
Consensus pattern (18 bp):
TTTCAAAACGTTATTCAA
Found at i:373030 original size:22 final size:21
Alignment explanation
Indices: 373002--373059 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
372992 ATACAATCGT
*
373002 AGATATGATATGTAATCTTAG
1 AGATATGATTTGTAATCTTAG
373023 AAGATATGATTTTGTAATCTTAG
1 -AGATATGA-TTTGTAATCTTAG
*
373046 AGATTTGATTTGTA
1 AGATATGATTTGTA
373060 GATACCTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 6 0.18
22 15 0.45
23 12 0.36
ACGTcount: A:0.34, C:0.03, G:0.19, T:0.43
Consensus pattern (21 bp):
AGATATGATTTGTAATCTTAG
Found at i:378169 original size:22 final size:21
Alignment explanation
Indices: 378141--378196 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 21
378131 ACAATCGTAA
*
378141 ATATGATATGTAATCTTAGAAG
1 ATATGATTTGTAATCTTAG-AG
378163 ATATGATTTTGTAATCTTAGAG
1 ATATGA-TTTGTAATCTTAGAG
*
378185 ATTTGATTTGTA
1 ATATGATTTGTA
378197 GATACCTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 6 0.19
22 13 0.42
23 12 0.39
ACGTcount: A:0.34, C:0.04, G:0.18, T:0.45
Consensus pattern (21 bp):
ATATGATTTGTAATCTTAGAG
Found at i:379329 original size:22 final size:21
Alignment explanation
Indices: 379294--379338 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
379284 GGCGAATCGG
379294 AAATTATCTCGGGATGTTTAAA
1 AAATTATCTCGGGAT-TTTAAA
*
379316 AAATTATC-CTGGGATTTTGAA
1 AAATTATCTC-GGGATTTTAAA
379337 AA
1 AA
379339 GTTTTCACTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.36
Consensus pattern (21 bp):
AAATTATCTCGGGATTTTAAA
Found at i:389337 original size:97 final size:96
Alignment explanation
Indices: 389227--389771 Score: 775
Period size: 96 Copynumber: 5.5 Consensus size: 96
389217 AAAAACAATT
* *
389227 TTTTTTTTGGGTGCTGGCCTGTTAATGGCCGGCACCCAGTACAATTTAAATTTTTTTTGTATCAG
1 TTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAATTTTTTTTGTGTCAG
* *
389292 AGTCAGATATCAGTATACGAAAAAAATAAAAA
66 AATCAGATATCAATATACGAAAAAAAT-AAAA
* * * *
389324 ATTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTAAAATTTTTTTCGTGTTAG
1 TTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAATTTTTTTTGTGTCAG
*
389389 AATCAGATATCAGTATACGAAAAAAATTAAAAAAA
66 AATCAGATATCAATATACGAAAAAAA-T---AAAA
* * * * *
389424 TTTATTTTGGGTGCTGGCCTGTCAATGGCCGACACCTAATACAATTTAATTTTTTTTTTCTTTTT
1 TTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAA----------ATTTTT
* * *
389489 TTTGCGTCAAAATCAGATATCAATATACGAAAAAAATAAAT
56 TTTGTGTCAGAATCAGATATCAATATACGAAAAAAATAAAA
*
389530 TTTTTTTTGGGTGCTGGCATGTCAATGGCCGGCACCCAGTACAATTTAAATTTTTTTTGTGTCAG
1 TTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAATTTTTTTTGTGTCAG
389595 AATCAGATATCAATATACGAAAAAAATAAAA
66 AATCAGATATCAATATACGAAAAAAATAAAA
*
389626 TTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAATTTTTTTGGTGTCAG
1 TTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAATTTTTTTTGTGTCAG
389691 AATCAGATATCAATATACGAAAAAAATAAAA
66 AATCAGATATCAATATACGAAAAAAATAAAA
*
389722 TTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAA
1 TTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAA
389772 AAAAAATTTG
Statistics
Matches: 403, Mismatches: 32, Indels: 27
0.87 0.07 0.06
Matches are distributed among these distances:
96 186 0.46
97 84 0.21
98 1 0.00
100 48 0.12
106 47 0.12
109 1 0.00
110 36 0.09
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (96 bp):
TTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAATTTTTTTTGTGTCAG
AATCAGATATCAATATACGAAAAAAATAAAA
Found at i:389568 original size:206 final size:192
Alignment explanation
Indices: 389231--389772 Score: 724
Period size: 206 Copynumber: 2.7 Consensus size: 192
389221 ACAATTTTTT
* * * * ** * *
389231 TTTTGGGTGCTGGCCTGTTAATGGCCGGCACCCAGTACAATTTAAATTTTTTTTGTATCAGAGTC
1 TTTTGGGTGCTGGCCTGTCAATGGCCGACACCCAATACAATTTAAATTTTTTTGGCGTCAAAATC
* *
389296 AGATATCAGTATACGAAAAAAATAAAAAATTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCC
66 AGATATCAATATACGAAAAAAAT-AAAATTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCC
* *
389361 AGTACAATTAAAATTTTTTTCGTGTTAGAATCAGATATCAGTATACGAAAAAAATTAAAAAAATT
130 AGTACAATTAAAATTTTTTTCGTGTCAGAATCAGATATCAATATACGAAAAAAA-T---AAAATT
389426 TA
191 TA
* * *
389428 TTTTGGGTGCTGGCCTGTCAATGGCCGACACCTAATACAATTTAATTTTTTTTTTCTTTTTTTTG
1 TTTTGGGTGCTGGCCTGTCAATGGCCGACACCCAATACAATTTAA----------ATTTTTTTGG
* *
389493 CGTCAAAATCAGATATCAATATACGAAAAAAATAAATTTTTTTTTGGGTGCTGGCATGTCAATGG
56 CGTCAAAATCAGATATCAATATACGAAAAAAATAAAATTTTTTTTGGGTGCTGGCCTGTCAATGG
* *
389558 CCGGCACCCAGTACAATTTAAATTTTTTTTGTGTCAGAATCAGATATCAATATACGAAAAAAATA
121 CCGGCACCCAGTACAATTAAAATTTTTTTCGTGTCAGAATCAGATATCAATATACGAAAAAAATA
*
389623 AAATTTT
186 AAATTTA
* * * *
389630 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAATTTTTTTGGTGTCAGAATC
1 TTTTGGGTGCTGGCCTGTCAATGGCCGACACCCAATACAATTTAAATTTTTTTGGCGTCAAAATC
389695 AGATATCAATATACGAAAAAAATAAAATTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCA
66 AGATATCAATATACGAAAAAAATAAAATTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCA
389760 GTACAAATTAAAA
131 GTAC-AATTAAAA
389773 AAAAATTTGT
Statistics
Matches: 306, Mismatches: 28, Indels: 26
0.85 0.08 0.07
Matches are distributed among these distances:
192 83 0.27
193 7 0.02
197 41 0.13
202 49 0.16
205 1 0.00
206 88 0.29
207 37 0.12
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (192 bp):
TTTTGGGTGCTGGCCTGTCAATGGCCGACACCCAATACAATTTAAATTTTTTTGGCGTCAAAATC
AGATATCAATATACGAAAAAAATAAAATTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCA
GTACAATTAAAATTTTTTTCGTGTCAGAATCAGATATCAATATACGAAAAAAATAAAATTTA
Found at i:389828 original size:303 final size:301
Alignment explanation
Indices: 389217--389832 Score: 905
Period size: 303 Copynumber: 2.0 Consensus size: 301
389207 GAAAAAAAAG
* * * *
389217 AAAAACAATTTTTTTTTTGGGTGCTGGCCTGTTAATGGCCGGCACCCAGTACAATTTAAATTTTT
1 AAAAATAAATTTTTTTTTGGGTGCTGGCATGTCAATGGCCGGCACCCAGTACAATTTAAATTTTT
* *
389282 TTTGTATCAGAGTCAGATATCAGTATACGAAAAAAATAAAAAATTTTTTTGGGTGCTGGCCTGTC
66 TTTGTATCAGAATCAGATATCAATATACGAAAAAAATAAAAAATTTTTTTGGGTGCTGGCCTGTC
* *
389347 AATGGCCGGCACCCAGTACAATTAAAATTTTTTTCGTGTTAGAATCAGATATCAGTATACGAAAA
131 AATGGCCGGCACCCAGTACAATTAAAATTTTTTTCGTGTCAGAATCAGATATCAATATACGAAAA
* * ****
389412 AAATTAAAAAAATTTATTTTGGGTGCTGGCCTGTCAATGGCCGACACCTAATACAATTTAATTTT
196 AAATT--AAAAATTTATTTTGGGTGCTGGCCTGTCAATGGCCGACACCCAATACAATTAAAAAAA
* * *
389477 TTTTTTCTTTTTTTTGCGTCAAAATCAGATATCAATATACGAA
259 ATTTGTCTTTTTTTTGCGTCAAAATCAAATATCAATATACGAA
389520 AAAAATAAATTTTTTTTTGGGTGCTGGCATGTCAATGGCCGGCACCCAGTACAATTTAAATTTTT
1 AAAAATAAATTTTTTTTTGGGTGCTGGCATGTCAATGGCCGGCACCCAGTACAATTTAAATTTTT
* *
389585 TTTGTGTCAGAATCAGATATCAATATACGAAAAAAAT-AAAATTTTTTTTGGGTGCTGGCCTGTC
66 TTTGTATCAGAATCAGATATCAATATACGAAAAAAATAAAAAATTTTTTTGGGTGCTGGCCTGTC
* *
389649 AATGGCCGGCACCCAGTACAATTTAAATTTTTTTGGTGTCAGAATCAGATATCAATATACGAAAA
131 AATGGCCGGCACCCAGTACAATTAAAATTTTTTTCGTGTCAGAATCAGATATCAATATACGAAAA
* * *
389714 AAA-T-AAAATTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAA
196 AAATTAAAAATTTATTTTGGGTGCTGGCCTGTCAATGGCCGACACCCAATAC-AATT-AAAAAAA
* * *
389777 ATTTGTCTTTTTTTTCTCGTGTCAGAATCAAATATCAGTATACGAA
259 ATTTGTC-TTTTTTT-T-GCGTCAAAATCAAATATCAATATACGAA
389823 AAAAATAAAT
1 AAAAATAAAT
389833 ATAATTATAT
Statistics
Matches: 281, Mismatches: 27, Indels: 10
0.88 0.08 0.03
Matches are distributed among these distances:
298 42 0.15
299 4 0.01
300 7 0.02
301 8 0.03
302 91 0.32
303 129 0.46
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (301 bp):
AAAAATAAATTTTTTTTTGGGTGCTGGCATGTCAATGGCCGGCACCCAGTACAATTTAAATTTTT
TTTGTATCAGAATCAGATATCAATATACGAAAAAAATAAAAAATTTTTTTGGGTGCTGGCCTGTC
AATGGCCGGCACCCAGTACAATTAAAATTTTTTTCGTGTCAGAATCAGATATCAATATACGAAAA
AAATTAAAAATTTATTTTGGGTGCTGGCCTGTCAATGGCCGACACCCAATACAATTAAAAAAAAT
TTGTCTTTTTTTTGCGTCAAAATCAAATATCAATATACGAA
Found at i:390137 original size:105 final size:105
Alignment explanation
Indices: 390023--390411 Score: 520
Period size: 110 Copynumber: 3.6 Consensus size: 105
390013 TATAATTATG
390023 TTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAAGAGAATTTTTTTTAATT
1 TTTATTTTTTTCGTATACTGATATCTGATTCTGACACG--AAAAAAAAGAGAATTTTTTTTAATT
*
390088 TGTACTGGGTGCCGACCATTGACAGGCCAGCACCCCAAATTTTTTTT
64 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCCAAA-----TTT
* *
390135 TTTATTTTTTTCGTATACTGAGATCTGATTCTGACATGAAAAAAAAGAGAATTTTTTTTAATTTG
1 TTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAGAGAATTTTTTTTAATTTG
390200 TACTGGGTGCCGGCCATTGACAGGCCAGCA-CCCAAATTTTTT
66 TACTGGGTGCCGGCCATTGACAGGCCAGCACCCCAAA---TTT
*
390242 TTTATTTTTTTCGTATACTGATATCTGATTCTGACACG-AAAAAAA-AGATTTTTTTTTAAATTT
1 TTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAGAGAATTTTTTTT-AATTT
* * *
390305 -TACTAGGTGCCGGCCATTGACAGGCCAACACCCAAAATTTTT
65 GTACTGGGTGCCGGCCATTGACAGGCCAGCACCCCAAA--TTT
*
390347 TTTATTTATTTTTTCGTATACTGATATCTGATTCTGACACG-AAAAAAA-AGACTTTTTTTTAAT
1 TTTA--T-TTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAGAGAATTTTTTTTAAT
390410 TT
63 TT
390412 ATAAGATTTT
Statistics
Matches: 262, Mismatches: 10, Indels: 15
0.91 0.03 0.05
Matches are distributed among these distances:
105 48 0.18
106 17 0.06
107 48 0.18
108 51 0.19
109 6 0.02
110 56 0.21
112 36 0.14
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (105 bp):
TTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAGAGAATTTTTTTTAATTTG
TACTGGGTGCCGGCCATTGACAGGCCAGCACCCCAAATTT
Found at i:390361 original size:215 final size:215
Alignment explanation
Indices: 390023--390411 Score: 624
Period size: 215 Copynumber: 1.8 Consensus size: 215
390013 TATAATTATG
390023 TTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAAGAGAATTTTTTTTAATT
1 TTTATTTTTTTCGTATACTGATATCTGATTCTGACACG--AAAAAAAAGAGAATTTTTTTTAATT
* * *
390088 TGTACTGGGTGCCGACCATTGACAGGCCAGCACCCCAAATTTTTTTTTTTATTTTTTTCGTATAC
64 TGTACTAGGTGCCGACCATTGACAGGCCAACACCCAAAATTTTTTTTTTTATTTTTTTCGTATAC
*
390153 TGAGATCTGATTCTGACATGAAAAAAAAGAGAATTTTTTTTAATTTGTACTGGGTGCCGGCCATT
129 TGAGATCTGATTCTGACACG-AAAAAAA-AGAATTTTTTTTAATTTGTACTGGGTGCCGGCCATT
390218 GACAGGCCAGCACCCAAATTTTTT
192 GACAGGCCAGCACCCAAATTTTTT
*
390242 TTTATTTTTTTCGTATACTGATATCTGATTCTGACACG-AAAAAAA-AGATTTTTTTTTAAATTT
1 TTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAGAGAATTTTTTTT-AATTT
*
390305 -TACTAGGTGCCGGCCATTGACAGGCCAACACCCAAAATTTTTTTTATTTA-TTTTTTCGTATAC
65 GTACTAGGTGCCGACCATTGACAGGCCAACACCCAAAATTTTTTTT-TTTATTTTTTTCGTATAC
* *
390368 TGATATCTGATTCTGACACGAAAAAAAAGACTTTTTTTTAATTT
129 TGAGATCTGATTCTGACACGAAAAAAAAGAATTTTTTTTAATTT
390412 ATAAGATTTT
Statistics
Matches: 160, Mismatches: 8, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
213 16 0.10
214 7 0.04
215 83 0.52
216 16 0.10
219 38 0.24
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (215 bp):
TTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAGAGAATTTTTTTTAATTTG
TACTAGGTGCCGACCATTGACAGGCCAACACCCAAAATTTTTTTTTTTATTTTTTTCGTATACTG
AGATCTGATTCTGACACGAAAAAAAAGAATTTTTTTTAATTTGTACTGGGTGCCGGCCATTGACA
GGCCAGCACCCAAATTTTTT
Found at i:390379 original size:108 final size:109
Alignment explanation
Indices: 390023--390411 Score: 605
Period size: 108 Copynumber: 3.6 Consensus size: 109
390013 TATAATTATG
390023 TTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAAGAGAATTTTTTTTAATT
1 TTTATTTTTTTCGTATACTGATATCTGATTCTGACACG--AAAAAAAAGAGAATTTTTTTTAATT
*
390088 TGTACTGGGTGCCGACCATTGACAGGCCAGCACCCCAAATTTTTTTT
64 TGTACTGGGTGCCGGCCATTGACAGGCCAGCA-CCCAAATTTTTTTT
* *
390135 TTTATTTTTTTCGTATACTGAGATCTGATTCTGACATGAAAAAAAAGAGAATTTTTTTTAATTTG
1 TTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAGAGAATTTTTTTTAATTTG
390200 TACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAA--TTTTTT
66 TACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTT
*
390242 TTTATTTTTTTCGTATACTGATATCTGATTCTGACACG-AAAAAAA-AGATTTTTTTTTAAATTT
1 TTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAGAGAATTTTTTTT-AATTT
* *
390305 -TACTAGGTGCCGGCCATTGACAGGCCAACACCCAAAATTTTTTTT
65 GTACTGGGTGCCGGCCATTGACAGGCCAGCACCC-AAATTTTTTTT
*
390350 ATTTA-TTTTTTCGTATACTGATATCTGATTCTGACACG-AAAAAAA-AGACTTTTTTTTAATTT
1 -TTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAGAGAATTTTTTTTAATTT
390412 ATAAGATTTT
Statistics
Matches: 263, Mismatches: 9, Indels: 15
0.92 0.03 0.05
Matches are distributed among these distances:
105 42 0.16
106 15 0.06
107 47 0.18
108 57 0.22
109 10 0.04
110 56 0.21
112 36 0.14
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (109 bp):
TTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAGAGAATTTTTTTTAATTTG
TACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTT
Found at i:390579 original size:182 final size:182
Alignment explanation
Indices: 390235--390576 Score: 542
Period size: 181 Copynumber: 1.9 Consensus size: 182
390225 CAGCACCCAA
* * *
390235 ATTTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAGATTTTTTTTTA
1 ATTTTTTTTAATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAGAATTTTTTTAA
* ***
390300 AATTTTACTAGGTGCCGGCCATTGACAGGCCAACACCCAAAATTTTTTTTATTTATTTTTTCGTA
66 AATTGTACTAGGTGCCGGCCATTGACAGGCCAACACCCAAAATTTTTTTTAAAAATTTTTTCGTA
*
390365 TACTGATATCTGATTCTGACACGAAAAAAAAGACTTTTTTTTAATTTATAAG
131 TACTGATATCTGATTCTAACACGAAAAAAAAGACTTTTTTTTAATTTATAAG
*
390417 ATTTTTTTTAATTTTTTTCGTATACTGATATCTGATTCTGACATG-AAAAAAAGAATTTTTTTAA
1 ATTTTTTTTAATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAGAATTTTTTTAA
* * * * *
390481 AATTGTATTGGGTGCCGGCCATTGACAGGCCAGCACTCAAAATTTTTTTTAAAAATTTTTTTGTA
66 AATTGTACTAGGTGCCGGCCATTGACAGGCCAACACCCAAAATTTTTTTTAAAAATTTTTTCGTA
*
390546 TACTGATATTTGATTCTAACACGAAAAAAAA
131 TACTGATATCTGATTCTAACACGAAAAAAAA
390577 AGAAATTTTT
Statistics
Matches: 145, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
181 102 0.70
182 43 0.30
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (182 bp):
ATTTTTTTTAATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAGAATTTTTTTAA
AATTGTACTAGGTGCCGGCCATTGACAGGCCAACACCCAAAATTTTTTTTAAAAATTTTTTCGTA
TACTGATATCTGATTCTAACACGAAAAAAAAGACTTTTTTTTAATTTATAAG
Found at i:390633 original size:110 final size:108
Alignment explanation
Indices: 390426--390741 Score: 330
Period size: 110 Copynumber: 3.0 Consensus size: 108
390416 GATTTTTTTT
* * * *
390426 AATTTTTTTCGTATACTGATATCTGATTCTGACATGAAAAAAAGAATTTTTTTAAAATTGTATTG
1 AATTTTTTTCGTATACTGATATCTGATTCTAACACGAAAAAAAGAATTTTTTAAAAATTGTACTG
*
390491 GGTGCCGGCCATTGACAGGCCAGCACTCAAAATTTTTTTTAAA
66 GGTGCCGGCCATTGACAGGCCAACACTCAAAATTTTTTTTAAA
*
390534 AATTTTTTT-GTATACTGATATTTGATTCTAACACGAAAAAAAAAGAAATTTTTTAAAAATTGTA
1 AATTTTTTTCGTATACTGATATCTGATTCTAACACG--AAAAAAAG-AATTTTTTAAAAATTGTA
* *
390598 CTGGGTGCCGGCCATTGACAGGTCAACAC-CAAAAATTTATATTTT--T
63 CTGGGTGCCGGCCATTGACAGGCCAACACTC-AAAATTT-T-TTTTAAA
* * * * *** *
390644 TA-TTTTTTCGTATATTGATATCTGACTCTGACAC------AATTTTTTTTTTAAAATTGTACTG
1 AATTTTTTTCGTATACTGATATCTGATTCTAACACGAAAAAAAGAATTTTTTAAAAATTGTACTG
* **
390702 GGTGCCGGCCATTGACAGGCCAACACCCAATTTTTTTTTT
66 GGTGCCGGCCATTGACAGGCCAACACTCAAAATTTTTTTT
390742 TTGTTTTTCT
Statistics
Matches: 180, Mismatches: 20, Indels: 25
0.80 0.09 0.11
Matches are distributed among these distances:
99 4 0.02
100 1 0.01
101 48 0.27
102 3 0.02
107 23 0.13
108 9 0.05
109 15 0.08
110 72 0.40
111 1 0.01
112 4 0.02
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (108 bp):
AATTTTTTTCGTATACTGATATCTGATTCTAACACGAAAAAAAGAATTTTTTAAAAATTGTACTG
GGTGCCGGCCATTGACAGGCCAACACTCAAAATTTTTTTTAAA
Found at i:390757 original size:396 final size:392
Alignment explanation
Indices: 390026--390749 Score: 998
Period size: 396 Copynumber: 1.8 Consensus size: 392
390016 AATTATGTTT
* *
390026 ATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAAGAGAATTTTTTTTAATTTGT
1 ATTTTTTTCGTATACTGATATCTGATTCTGACACG---AAAAAAAGAGAATTTTTTTAAAATTGT
* ***
390091 ACTGGGTGCCGACCATTGACAGGCCAGCACCCCAAATTTTTTTTTTTATTTTTTTCGTATACTGA
63 ACTGGGTGCCGACCATTGACAGGCCAGCACCCAAAATTTTTTTTAAAATTTTTTTCGTATACTGA
* * ** *
390156 GATCTGATTCTGACATGAAAAAAAAGAGAATTTTTTTTAATTTGTACTGGGTGCCGGCCATTGAC
128 GATCTGATTCTAACACGAAAAAAAAGAGAATTTTTTAAAAATTGTACTGGGTGCCGGCCATTGAC
* * *
390221 AGGCCAGCACCCAAATTTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAA
193 AGGCCAACACCAAAATTTTTTTTTATTTTTTTCGTATACTGATATCTGACTCTGACAC------A
*
390286 AAGATTTTTTTTTAAATTTTACTAGGTGCCGGCCATTGACAGGCCAACACCCAAAATTTTTTTTA
252 AAGATTTTTTTTTAAATTGTACTAGGTGCCGGCCATTGACAGGCCAACACCCAAAATTTTTTTTA
390351 TTTATTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAGACTTTTTTTTAATTTATAA
317 TTTATTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAGACTTTTTTTTAATTTATAA
390416 GATTTTTTTTA
382 GATTTTTTTTA
* *
390427 ATTTTTTTCGTATACTGATATCTGATTCTGACATG-AAAAAA-AGAATTTTTTTAAAATTGTATT
1 ATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAGAGAATTTTTTTAAAATTGTACT
* * *
390490 GGGTGCCGGCCATTGACAGGCCAGCACTCAAAATTTTTTTTAAAAATTTTTTT-GTATACTGATA
66 GGGTGCCGACCATTGACAGGCCAGCACCCAAAATTTTTTTT-AAAATTTTTTTCGTATACTGAGA
*
390554 TTTGATTCTAACACGAAAAAAAA-AGAAATTTTTTAAAAATTGTACTGGGTGCCGGCCATTGACA
130 TCTGATTCTAACACGAAAAAAAAGAG-AATTTTTTAAAAATTGTACTGGGTGCCGGCCATTGACA
* *
390618 GGTCAACACCAAAAATTTATATTTTT-TATTTTTTCGTATATTGATATCTGACTCTGACAC-AA-
194 GGCCAACACC-AAAATTT-T-TTTTTAT-TTTTTTCGTATACTGATATCTGACTCTGACACAAAG
* * *
390680 TTTTTTTTTTAAAATTGTACTGGGTGCCGGCCATTGACAGGCCAACACCC--AATTTTTTTTTTT
255 ATTTTTTTTT-AAATTGTACTAGGTGCCGGCCATTGACAGGCCAACACCCAAAATTTTTTTTATT
*
390743 TGTTTTT
319 TATTTTT
390750 CTTTTTTCCC
Statistics
Matches: 289, Mismatches: 27, Indels: 25
0.85 0.08 0.07
Matches are distributed among these distances:
390 18 0.06
391 9 0.03
392 39 0.13
395 2 0.01
396 130 0.45
397 20 0.07
398 2 0.01
399 35 0.12
401 34 0.12
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (392 bp):
ATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAGAGAATTTTTTTAAAATTGTACT
GGGTGCCGACCATTGACAGGCCAGCACCCAAAATTTTTTTTAAAATTTTTTTCGTATACTGAGAT
CTGATTCTAACACGAAAAAAAAGAGAATTTTTTAAAAATTGTACTGGGTGCCGGCCATTGACAGG
CCAACACCAAAATTTTTTTTTATTTTTTTCGTATACTGATATCTGACTCTGACACAAAGATTTTT
TTTTAAATTGTACTAGGTGCCGGCCATTGACAGGCCAACACCCAAAATTTTTTTTATTTATTTTT
TCGTATACTGATATCTGATTCTGACACGAAAAAAAAGACTTTTTTTTAATTTATAAGATTTTTTT
TA
Found at i:397348 original size:34 final size:34
Alignment explanation
Indices: 397310--397380 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
397300 AAATATATTA
397310 TTTACTTTATGGGTTGCATCTCCCTCTTGCCTGC
1 TTTACTTTATGGGTTGCATCTCCCTCTTGCCTGC
397344 TTTACTTTATGGGTTGCATCTCCCTCTTGCCTGC
1 TTTACTTTATGGGTTGCATCTCCCTCTTGCCTGC
397378 TTT
1 TTT
397381 GAGGTATGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.08, C:0.28, G:0.17, T:0.46
Consensus pattern (34 bp):
TTTACTTTATGGGTTGCATCTCCCTCTTGCCTGC
Found at i:420536 original size:24 final size:24
Alignment explanation
Indices: 420508--420557 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
420498 TGCTGAGCTT
420508 CTCTTTGGATCTTGTCTATTAATG
1 CTCTTTGGATCTTGTCTATTAATG
420532 CTCTTTGGATCTTGTCTATTAATG
1 CTCTTTGGATCTTGTCTATTAATG
420556 CT
1 CT
420558 ATGTAGTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.16, C:0.18, G:0.16, T:0.50
Consensus pattern (24 bp):
CTCTTTGGATCTTGTCTATTAATG
Found at i:420937 original size:19 final size:18
Alignment explanation
Indices: 420910--420946 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
420900 CTGACGTTGA
*
420910 ATGTTTCGAGACATGAGCC
1 ATGTATCGAGACAT-AGCC
420929 ATGTATCGAGACATAGCC
1 ATGTATCGAGACATAGCC
420947 CACTTTATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (18 bp):
ATGTATCGAGACATAGCC
Found at i:421047 original size:12 final size:13
Alignment explanation
Indices: 421024--421070 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 13
421014 ATGGTGCCCA
421024 AAATTACAAAAAT
1 AAATTACAAAAAT
421037 AAATT-C-AAAA-
1 AAATTACAAAAAT
421047 AAA-TACAAAAA-
1 AAATTACAAAAAT
421058 AAATTACACAAAA
1 AAATTACA-AAAA
421071 CACAACACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
9 1 0.03
10 4 0.13
11 11 0.37
12 5 0.17
13 9 0.30
ACGTcount: A:0.72, C:0.11, G:0.00, T:0.17
Consensus pattern (13 bp):
AAATTACAAAAAT
Found at i:421070 original size:21 final size:22
Alignment explanation
Indices: 421022--421075 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
421012 ACATGGTGCC
421022 CAAAATTACAAAAATAAATTCAA
1 CAAAA-TACAAAAATAAATTCAA
*
421045 AAAAATACAAAAA-AAATT-ACA
1 CAAAATACAAAAATAAATTCA-A
*
421066 CAAAACACAA
1 CAAAATACAA
421076 CACAAACATG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 1 0.04
21 14 0.52
22 8 0.30
23 4 0.15
ACGTcount: A:0.70, C:0.15, G:0.00, T:0.15
Consensus pattern (22 bp):
CAAAATACAAAAATAAATTCAA
Found at i:421070 original size:22 final size:22
Alignment explanation
Indices: 421022--421070 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
421012 ACATGGTGCC
*
421022 CAAAATTACAAAAATAAATTCA
1 CAAAAATACAAAAATAAATTCA
*
421044 AAAAAATACAAAAA-AAATTACA
1 CAAAAATACAAAAATAAATT-CA
421066 CAAAA
1 CAAAA
421071 CACAACACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.16
Consensus pattern (22 bp):
CAAAAATACAAAAATAAATTCA
Found at i:423321 original size:106 final size:107
Alignment explanation
Indices: 423135--423456 Score: 506
Period size: 106 Copynumber: 3.0 Consensus size: 107
423125 AAGAAAATTT
423135 TTTCTAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTT
1 TTTCTAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTT
423200 CGATTACTCGTTTGGCCAAATAGCCAAATATCCTTTTTAAAC
66 CGATTACTCGTTTGGCCAAATAGCCAAATATCCTTTTTAAAC
* *
423242 -TTCTAAATAAGGCAATATTTTCCGTTTGGAAATTTGAGAAAACGTGCCCTAACGTGCTGGGTTT
1 TTTCTAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTT
423306 CGATTACTCGTTTGGCCAAATAGCCAAATATCCTTTTTAAAC
66 CGATTACTCGTTTGGCCAAATAGCCAAATATCCTTTTTAAAC
* ** * * *
423348 TTTCAAAACGAGGCAATGTTTTGCGTTTGGAAATTCGAGAGAATGTGCCCTAACGTGCTGGGTTT
1 TTTCTAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTT
* * * * *
423413 CGATTTCTCGTTCGACCAAATAGCTAAATAT-CTTCTT-AAC
66 CGATTACTCGTTTGGCCAAATAGCCAAATATCCTTTTTAAAC
423453 TTTC
1 TTTC
423457 AATCAATATT
Statistics
Matches: 199, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
105 7 0.04
106 109 0.55
107 83 0.42
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (107 bp):
TTTCTAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTT
CGATTACTCGTTTGGCCAAATAGCCAAATATCCTTTTTAAAC
Found at i:434740 original size:24 final size:24
Alignment explanation
Indices: 434708--434763 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 24
434698 ATGTCCCAAA
434708 ATTACAGTGGACTT-AACCTTGAAG
1 ATTACAGTGGA-TTGAACCTTGAAG
*
434732 ATTACAGTGGATTGAACTTTGAAG
1 ATTACAGTGGATTGAACCTTGAAG
434756 ATTACAGT
1 ATTACAGT
434764 AAGGGCAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 2 0.07
24 28 0.93
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.32
Consensus pattern (24 bp):
ATTACAGTGGATTGAACCTTGAAG
Found at i:435134 original size:44 final size:44
Alignment explanation
Indices: 435084--435718 Score: 503
Period size: 44 Copynumber: 14.5 Consensus size: 44
435074 TATCCAATCC
* * * * *
435084 TATCTCCTTGAGCAGTAATGGAGCAGGTCAAAGATGGAAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
* * *
435128 TATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGAC-GATGAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAG-ATCT
** * ** * *** *
435172 TATCTTTCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG-TCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
* * *
435215 TATCTCCCTAAGTAGTAGTGGAGCAGGTCAAAGATGGAAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
* * * *
435259 TACCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGG-CGAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAG-ATCT
* * ** * *** *
435303 TATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG-TCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
* * *
435346 TATCTCCCTAAGCAGTAGTGAAGCAGGTCAAAGATGGAAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
* * *
435390 TATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGG-CGAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAG-ATCT
* * ** * *** *
435434 TATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG-TCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
* * *
435477 TATCTCCCTAAGAAGTAGTGGAGCAGGTCAAAGATGGAAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
* * *
435521 TATCTCCGTAAGCAGTAGTGGAGCAGATCGAAGACGG-CGAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAG-ATCT
* * ** * *** *
435565 TATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG-TCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
* * *
435608 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAAATGGAAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
** * * * *
435652 TATCTCCCTAAGCAGTAGTGGAATAGATCGAAGATGGTAGATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
* *
435696 TATCTCCCTAAGTAGCAGTGGAG
1 TATCTCCCTAAGCAGTAGTGGAG
435719 TAGGTAGGAT
Statistics
Matches: 455, Mismatches: 124, Indels: 24
0.75 0.21 0.04
Matches are distributed among these distances:
43 131 0.29
44 320 0.70
45 4 0.01
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (44 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
Found at i:435612 original size:87 final size:87
Alignment explanation
Indices: 435081--435671 Score: 391
Period size: 87 Copynumber: 6.8 Consensus size: 87
435071 TTTTATCCAA
* * * * * *
435081 TCCTATCTCCTTGAGCAGTAATGGAGCAGGTCAAAGATGG-AAGATCTTATCTCCCTAAGTAGTA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAA-ATCTTATCTCCCTAAGCAGTA
* * * ** *
435145 GTGGAGCAGATCGAAGACGATGAA
65 GTGAAGCAGATCTAAG-CCACCAG
* ** * ** ** * * * *
435169 TCTTATCTTTCTAAGCAGTAGTGAAGCAGATTTAAG-CCACCAGTCCTATCTCCCTAAGTAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTCCCTAAGCAGTAG
* * * *****
435233 TGGAGCAGGTCAAAGATGGAAG
66 TGAAGCAGATCTAAGCCACCAG
* * * * * *
435255 ATCTTACCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTA
1 -TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTCCCTAAGCAGTA
*
435320 GTGAAGCAGATTTAAGCCACCAG
65 GTGAAGCAGATCTAAGCCACCAG
* * * *
435343 TCCTATCTCCCTAAGCAGTAGTGAAGCAGGTCAAAGATGG-AAGATCTTATCTCCCTAAGTAGTA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAA-ATCTTATCTCCCTAAGCAGTA
* * ** * *
435407 GTGGAGCAGATCGAAGACGGCGAA
65 GTGAAGCAGATCTAAG-CCACCAG
* * * ** ** * * * *
435431 TCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAG-CCACCAGTCCTATCTCCCTAAGAAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTCCCTAAGCAGTAG
* * * *****
435495 TGGAGCAGGTCAAAGATGGAAG
66 TGAAGCAGATCTAAGCCACCAG
* * * * *
435517 ATCTTATCTCCGTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTA
1 -TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTCCCTAAGCAGTA
*
435582 GTGAAGCAGATTTAAGCCACCAG
65 GTGAAGCAGATCTAAGCCACCAG
* * *
435605 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAAATGG-AAGATCTTATCTCCCTAAGCAGTA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAA-ATCTTATCTCCCTAAGCAGTA
435669 GTG
65 GTG
435672 GAATAGATCG
Statistics
Matches: 382, Mismatches: 112, Indels: 19
0.74 0.22 0.04
Matches are distributed among these distances:
86 5 0.01
87 247 0.65
88 130 0.34
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (87 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTCCCTAAGCAGTAG
TGAAGCAGATCTAAGCCACCAG
Found at i:435707 original size:131 final size:131
Alignment explanation
Indices: 435081--435685 Score: 1066
Period size: 131 Copynumber: 4.6 Consensus size: 131
435071 TTTTATCCAA
* * *
435081 TCCTATCTCCTTGAGCAGTAATGGAGCAGGTCAAAGATGGAAGATCTTATCTCCCTAAGTAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCTTATCTCCCTAAGTAGTAG
** *
435146 TGGAGCAGATCGAAGACGATGAATCTTATCTTTCTAAGCAGTAGTGAAGCAGATTTAAGCCACCA
66 TGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCA
435211 G
131 G
* *
435212 TCCTATCTCCCTAAGTAGTAGTGGAGCAGGTCAAAGATGGAAGATCTTACCTCCCTAAGTAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCTTATCTCCCTAAGTAGTAG
435277 TGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCA
66 TGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCA
435342 G
131 G
*
435343 TCCTATCTCCCTAAGCAGTAGTGAAGCAGGTCAAAGATGGAAGATCTTATCTCCCTAAGTAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCTTATCTCCCTAAGTAGTAG
435408 TGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCA
66 TGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCA
435473 G
131 G
* * *
435474 TCCTATCTCCCTAAGAAGTAGTGGAGCAGGTCAAAGATGGAAGATCTTATCTCCGTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCTTATCTCCCTAAGTAGTAG
435539 TGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCA
66 TGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCA
435604 G
131 G
* *
435605 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAAATGGAAGATCTTATCTCCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCTTATCTCCCTAAGTAGTAG
**
435670 TGGAATAGATCGAAGA
66 TGGAGCAGATCGAAGA
435686 TGGTAGATCC
Statistics
Matches: 454, Mismatches: 20, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
131 454 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (131 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCTTATCTCCCTAAGTAGTAG
TGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCA
G
Found at i:436843 original size:12 final size:13
Alignment explanation
Indices: 436820--436848 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
436810 TTGAAGGCCT
436820 AGAGAGAAGGGGG
1 AGAGAGAAGGGGG
436833 AGAGA-AAGGGGG
1 AGAGAGAAGGGGG
436845 AGAG
1 AGAG
436849 TTTGATTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.41, C:0.00, G:0.59, T:0.00
Consensus pattern (13 bp):
AGAGAGAAGGGGG
Found at i:437866 original size:106 final size:106
Alignment explanation
Indices: 437681--438096 Score: 609
Period size: 107 Copynumber: 3.9 Consensus size: 106
437671 AGAAATTTTT
*
437681 TTCTAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTTC
1 TTCTAAATAAGGCAATATTTTCCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTTC
* *
437746 GATTACTCGTTTGGCCAAATAGCCAAATATCCTTTTTAAAC
66 GATTACTCGTTCGACCAAATAGCCAAATATCCTTTTTAAAC
**
437787 TTCTAAATAAGGCAATATTTTCCGTTTGGAAATTTAAGAAAACGTGCCCTAACGTGCTGGGTTTC
1 TTCTAAATAAGGCAATATTTTCCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTTC
* *
437852 GATTACTCGTTTGGCCAAATAGCCAAATATCCTTTTTAAAC
66 GATTACTCGTTCGACCAAATAGCCAAATATCCTTTTTAAAC
* * *
437893 TTTTAAAATAAGGCAATA-TTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTT
1 TTCT-AAATAAGGCAATATTTTC-CGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTT
* *
437957 TCAATTCCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAAC
64 TCGATTACTCGTTCGACCAAATAGCCAAATATCCTTTTTAAAC
* ** * * **
438000 TCTCAAAACGAGGCAATATTTTGCGTTTGGAAATTCGAGAGAATATGCCCTAACGTGCTGGGTTT
1 T-TCTAAATAAGGCAATATTTTCCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTT
* *
438065 CGATTTCTCGTTCGACCAAATAGCTAAATATC
65 CGATTACTCGTTCGACCAAATAGCCAAATATC
438097 TTCTTAACTT
Statistics
Matches: 281, Mismatches: 25, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
106 110 0.39
107 167 0.59
108 4 0.01
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (106 bp):
TTCTAAATAAGGCAATATTTTCCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTTC
GATTACTCGTTCGACCAAATAGCCAAATATCCTTTTTAAAC
Found at i:441837 original size:41 final size:41
Alignment explanation
Indices: 441766--441879 Score: 101
Period size: 41 Copynumber: 2.7 Consensus size: 41
441756 TTAATCTTAA
* **
441766 CATTGTTTTAAATTTATCATTAGTTTTATTTTAA-TATCATA-
1 CATTATTTTAAA-TTATCA-TAGTACTATTTTAACTATCATAT
*
441807 CTATTATTTTAAATTATCATAAGTACTATTTAAACTTATCATAT
1 C-ATTATTTTAAATTATCAT-AGTACTATTTTAAC-TATCATAT
*
441851 CATTA-TTTAGATTTATCAT-GTACTATTTT
1 CATTATTTTA-AATTATCATAGTACTATTTT
441880 TTTTAGTGTG
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
40 1 0.02
41 26 0.43
42 14 0.23
43 19 0.31
44 1 0.02
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.53
Consensus pattern (41 bp):
CATTATTTTAAATTATCATAGTACTATTTTAACTATCATAT
Found at i:441859 original size:21 final size:20
Alignment explanation
Indices: 441791--441869 Score: 56
Period size: 21 Copynumber: 3.8 Consensus size: 20
441781 ATCATTAGTT
*
441791 TTATTTTAA-TATCATA-CTA
1 TTATTTAAATTATCATATC-A
441810 TTATTTTAAATTATCATAAGT-A
1 TTA-TTTAAATTATCAT-A-TCA
*
441832 CTATTTAAACTTATCATATCA
1 TTATTTAAA-TTATCATATCA
*
441853 TTATTTAGATTTATCAT
1 TTATTTA-AATTATCAT
441870 GTACTATTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
19 3 0.06
20 6 0.12
21 27 0.56
22 12 0.25
ACGTcount: A:0.37, C:0.10, G:0.03, T:0.51
Consensus pattern (20 bp):
TTATTTAAATTATCATATCA
Found at i:446730 original size:6 final size:6
Alignment explanation
Indices: 446714--446783 Score: 61
Period size: 6 Copynumber: 11.5 Consensus size: 6
446704 TAAAAAAATC
** *
446714 AATCAAA AATCAA AATCAA AATCAA AAAGAA GAA-AAA AATCAA AATCAA
1 AATC-AA AATCAA AATCAA AATCAA AATCAA -AATCAA AATCAA AATCAA
** *
446763 AATCAA GGTCAA AATGAA AAT
1 AATCAA AATCAA AATCAA AAT
446784 GAGAGAAAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
5 2 0.04
6 44 0.85
7 6 0.12
ACGTcount: A:0.67, C:0.11, G:0.07, T:0.14
Consensus pattern (6 bp):
AATCAA
Found at i:446765 original size:42 final size:42
Alignment explanation
Indices: 446705--446793 Score: 110
Period size: 42 Copynumber: 2.1 Consensus size: 42
446695 CCTATAAGCT
446705 AAAAAAATCAATCAAAAATCAAAATCAAAATCAAAAAGA-AG
1 AAAAAAATCAATCAAAAATCAAAATCAAAATCAAAAAGAGAG
** * *
446746 AAAAAAATCAAAATC-AAAATCAAGGTCAAAATGAAAATGAGAG
1 AAAAAAATC--AATCAAAAATCAAAATCAAAATCAAAAAGAGAG
446789 AAAAA
1 AAAAA
446794 TAAAGAAGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
41 9 0.22
42 21 0.51
43 11 0.27
ACGTcount: A:0.69, C:0.10, G:0.09, T:0.12
Consensus pattern (42 bp):
AAAAAAATCAATCAAAAATCAAAATCAAAATCAAAAAGAGAG
Found at i:446776 original size:24 final size:24
Alignment explanation
Indices: 446722--446783 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
446712 TCAATCAAAA
*
446722 ATCAAAATCAAAATCAAAAAGAAG
1 ATCAAAATCAAAATCAAAAACAAG
** *
446746 AAAAAAATCAAAATCAAAATCAAG
1 ATCAAAATCAAAATCAAAAACAAG
* *
446770 GTCAAAATGAAAAT
1 ATCAAAATCAAAAT
446784 GAGAGAAAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.66, C:0.11, G:0.08, T:0.15
Consensus pattern (24 bp):
ATCAAAATCAAAATCAAAAACAAG
Found at i:447732 original size:14 final size:14
Alignment explanation
Indices: 447704--447744 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
447694 CTCTGAGTAA
447704 AAAAAATGAACAAATG
1 AAAAAATG-A-AAATG
447720 AAAAAATGAAAATG
1 AAAAAATGAAAATG
447734 -AAAAATGAAAA
1 AAAAAATGAAAA
447745 ATGGAGAGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 11 0.44
14 5 0.20
15 1 0.04
16 8 0.32
ACGTcount: A:0.73, C:0.02, G:0.12, T:0.12
Consensus pattern (14 bp):
AAAAAATGAAAATG
Found at i:447738 original size:7 final size:7
Alignment explanation
Indices: 447705--447747 Score: 61
Period size: 7 Copynumber: 6.0 Consensus size: 7
447695 TCTGAGTAAA
447705 AAAAATG
1 AAAAATG
447712 AACAAATG
1 AA-AAATG
447720 AAAAAATG
1 -AAAAATG
447728 -AAAATG
1 AAAAATG
447734 AAAAATG
1 AAAAATG
447741 AAAAATG
1 AAAAATG
447748 GAGAGGCTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 6 0.18
7 15 0.45
8 10 0.30
9 2 0.06
ACGTcount: A:0.70, C:0.02, G:0.14, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:449223 original size:131 final size:131
Alignment explanation
Indices: 448989--449435 Score: 786
Period size: 131 Copynumber: 3.4 Consensus size: 131
448979 GAAAACAAAG
* * *
448989 TCTTGTCTCCCTAAGCAGTAGCGGAGCAAATCGAAGACGGTGAATCTTATCTTCCCTAGGAGTAG
1 TCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAG
* *
449054 GGAAACAGATTTAAGCCGTAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGAAAATTGCAG
66 GGAAACAGATTTAAGCCGCAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGCAG
449119 A
131 A
449120 TCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAG
1 TCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAG
* *
449185 GGAAACATATTTAAGCTGCAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGCAG
66 GGAAACAGATTTAAGCCGCAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGCAG
449250 A
131 A
* *
449251 TCTTGTTTCCCTAAGCAGTAGCGGAGCAGATTGAAGACGGCGAATCTTATCTTCCCCAGGAGTAG
1 TCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAG
*
449316 GGAAACAGATTTAAGCCGCAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTACAG
66 GGAAACAGATTTAAGCCGCAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGCAG
449381 A
131 A
* *
449382 TCTTGTCTCCCTAAGCAGTAGCGGAACAGATAGAAGACGGCGAATCTTATCTTC
1 TCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTC
449436 AAGTGTAAGG
Statistics
Matches: 301, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
131 301 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (131 bp):
TCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAG
GGAAACAGATTTAAGCCGCAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGCAG
A
Found at i:449613 original size:45 final size:44
Alignment explanation
Indices: 449551--449671 Score: 125
Period size: 45 Copynumber: 2.7 Consensus size: 44
449541 TCGCAGCTGG
* * *
449551 TCTTATCCCCCTAAAGTTGTAGTGGGGCAGATCGAAGATGACAAA
1 TCTTATCTCCCTAAAGTTGTAGTGGAGCAGATCGAAGACGA-AAA
* ** * * * *
449596 TCTTATCTCCCTGAAGTTACAGTGGAGAAGATTGAAGCCGATAA
1 TCTTATCTCCCTAAAGTTGTAGTGGAGCAGATCGAAGACGAAAA
* *
449640 TCCTATCTCCTTAAAGTTGTAGTGGAGCAGAT
1 TCTTATCTCCCTAAAGTTGTAGTGGAGCAGAT
449672 TAAAGTAATA
Statistics
Matches: 60, Mismatches: 16, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
44 28 0.47
45 32 0.53
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTAAAGTTGTAGTGGAGCAGATCGAAGACGAAAA
Found at i:449691 original size:44 final size:44
Alignment explanation
Indices: 449551--449920 Score: 135
Period size: 44 Copynumber: 8.4 Consensus size: 44
449541 TCGCAGCTGG
* * * *
449551 TCTTATCCCCCTAAAGTTGTAGTGGGGCAGATCGAAGATGACAAA
1 TCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGATGA-TAA
* ** * **
449596 TCTTATCTCCCTGAAGTTACAGTGGAGAAGATTGAAGCCGATAA
1 TCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGATGATAA
* * * *
449640 TCCTATCTCCTTAAAGTTGTAGTGGAGCAGATTAAAG-TAATAGA
1 TCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGATGATA-A
* * ** * ** * * * **
449684 TCTTATCTCTCTGAAGTTACAGTAGAGTGGATCG--CATCA-GG
1 TCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGATGATAA
* * * * * * * **
449725 TCTTATCTCCCTGAGGTTGCAGTGGAGTAGACTGAATAAGCA-GG
1 TCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGATG-ATAA
* * * * * * *
449769 TCTTATCCCCCTGAAGCTGCAGTGGGGCAGATCGAAAATGGCA-AA
1 TCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGAT-G-ATAA
* * * **
449814 TATCATCTCCCTGAAGTTACAGTGGAGCAGATTGAAG-TCGATAA
1 TCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGAT-GATAA
* * ** * *
449858 TCCTATCTCCATAAAGTTGTAGTGGAGTGGATTAAAG-TAATAGA
1 TCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGATGATA-A
*
449902 TCTTATCTCTCTAAAGTTG
1 TCTTATCTCCCTAAAGTTG
449921 CAGCAGAGTG
Statistics
Matches: 239, Mismatches: 78, Indels: 17
0.72 0.23 0.05
Matches are distributed among these distances:
41 27 0.11
43 10 0.04
44 138 0.58
45 64 0.27
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGATGATAA
Found at i:449840 original size:174 final size:174
Alignment explanation
Indices: 449450--449851 Score: 454
Period size: 174 Copynumber: 2.3 Consensus size: 174
449440 GTAAGGAAAT
* * **
449450 AGATTGAAGCCGATAATCCTATCTCCCTGAAGTTTTAGTGGAGTGGATTAAAGTAATAGATCTTA
1 AGATCGAAGCCGATAATCCTATCTCCCTGAAGTTATAGTGGAGCAGATTAAAGTAATAGATCTTA
* * * *
449515 TCTCTCTGAAGTTGCAGTAGAGTGGATCGCAGCTGGTCTTATCCCCCTAAAGTTGTAGTGGGGCA
66 TCTCTCTGAAGTTACAGTAGAGTGGATCGCAGCAGGTCTTATCCCCCTAAAGTTGCAGTGGAGCA
* * *
449580 GATCGAAGATGACAAATCTTATCTCCCTGAAGTTACAGTGGAGA
131 GATCGAAGAAGACAAATCTTATCCCCCTGAAGCTACAGTGGAGA
* * * *
449624 AGATTGAAGCCGATAATCCTATCTCCTTAAAGTTGTAGTGGAGCAGATTAAAGTAATAGATCTTA
1 AGATCGAAGCCGATAATCCTATCTCCCTGAAGTTATAGTGGAGCAGATTAAAGTAATAGATCTTA
* * * * *
449689 TCTCTCTGAAGTTACAGTAGAGTGGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGTGGAGTA
66 TCTCTCTGAAGTTACAGTAGAGTGGATCGCAGCAGGTCTTATCCCCCTAAAGTTGCAGTGGAGCA
* ** * * *
449754 GA-CTGAATAAG-CAGGTCTTATCCCCCTGAAGCTGCAGTGGGGC
131 GATC-GAAGAAGACAAATCTTATCCCCCTGAAGCTACAGTGGAGA
* * * *
449797 AGATCGAAAATGGC-A-AAT-ATCATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGT
1 AGATCG--AA-GCCGATAATCCT-ATCTCCCTGAAGTTATAGTGGAGCAGATTAAAGT
449852 CGATAATCCT
Statistics
Matches: 192, Mismatches: 31, Indels: 10
0.82 0.13 0.04
Matches are distributed among these distances:
173 32 0.17
174 155 0.81
175 3 0.02
176 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (174 bp):
AGATCGAAGCCGATAATCCTATCTCCCTGAAGTTATAGTGGAGCAGATTAAAGTAATAGATCTTA
TCTCTCTGAAGTTACAGTAGAGTGGATCGCAGCAGGTCTTATCCCCCTAAAGTTGCAGTGGAGCA
GATCGAAGAAGACAAATCTTATCCCCCTGAAGCTACAGTGGAGA
Found at i:449858 original size:218 final size:216
Alignment explanation
Indices: 449549--450082 Score: 736
Period size: 218 Copynumber: 2.5 Consensus size: 216
449539 GATCGCAGCT
* * * *
449549 GGTCTTATCCCCCTAAAGTTGTAGTGGGGCAGATCGAAGATGACAAATCTTATCTCCCTGAAGTT
1 GGTCTTATCCCCCTGAAG-TGCAGTGGGGCAGATCGAAAATGGCAAATCTTATCTCCCTGAAGTT
* *
449614 ACAGTGGAGAAGATTGAAGCCGATAATCCTATCTCCTTAAAGTTGTAGTGGAGCAGATTAAAGTA
65 ACAGTGGAGAAGATTGAAGTCGATAATCCTATCTCCATAAAGTTGTAGTGGAGCAGATTAAAGTA
* * *
449679 ATAGATCTTATCTCTCTGAAGTTACAGTAGAGTGGATCGCATCAGGTCTTATCTCCCTGAGGTTG
130 ATAGATCTTATCTCTCTAAAGTTACAGCAGAGTGGATCGCATCAGGTCTTATCTCCCTAAGGTTG
* * *
449744 CAGTGGAGTAGACTGA-ATAAGC
195 CAGTGGAGCAAACTGAGA-AAAC
* *
449766 AGGTCTTATCCCCCTGAAGCTGCAGTGGGGCAGATCGAAAATGGCAAATATCATCTCCCTGAAGT
1 -GGTCTTATCCCCCTGAAG-TGCAGTGGGGCAGATCGAAAATGGCAAATCTTATCTCCCTGAAGT
* **
449831 TACAGTGGAGCAGATTGAAGTCGATAATCCTATCTCCATAAAGTTGTAGTGGAGTGGATTAAAGT
64 TACAGTGGAGAAGATTGAAGTCGATAATCCTATCTCCATAAAGTTGTAGTGGAGCAGATTAAAGT
*
449896 AATAGATCTTATCTCTCTAAAGTTGCAGCAGAGTGGATCGCATCAGGTCTTATCTCCCTAAGGTT
129 AATAGATCTTATCTCTCTAAAGTTACAGCAGAGTGGATCGCATCAGGTCTTATCTCCCTAAGGTT
449961 GCAGTGGAGCAAACTGAGAAAAC
194 GCAGTGGAGCAAACTGAGAAAAC
* * * *
449984 GAGTCTTATCCCCTTGAAGT-CATAGTGGGGCAGA-CTGATGAA--GCAAATCTTATCTTCTTGA
1 G-GTCTTATCCCCCTGAAGTGC--AGTGGGGCAGATC-GA-AAATGGCAAATCTTATCTCCCTGA
* *
450045 GGTTGCAGTGGAGAAGATTGAAGTCGATAATCCTATCT
61 AGTTACAGTGGAGAAGATTGAAGTCGATAATCCTATCT
450083 GAAGTTGCAG
Statistics
Matches: 282, Mismatches: 28, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
216 1 0.00
217 53 0.19
218 225 0.80
219 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (216 bp):
GGTCTTATCCCCCTGAAGTGCAGTGGGGCAGATCGAAAATGGCAAATCTTATCTCCCTGAAGTTA
CAGTGGAGAAGATTGAAGTCGATAATCCTATCTCCATAAAGTTGTAGTGGAGCAGATTAAAGTAA
TAGATCTTATCTCTCTAAAGTTACAGCAGAGTGGATCGCATCAGGTCTTATCTCCCTAAGGTTGC
AGTGGAGCAAACTGAGAAAAC
Found at i:451789 original size:41 final size:41
Alignment explanation
Indices: 451718--451831 Score: 101
Period size: 41 Copynumber: 2.7 Consensus size: 41
451708 TTAATCTTAA
* **
451718 CATTGTTTTAAATTTATCATTAGTTTTATTTTAA-TATCATA-
1 CATTATTTTAAA-TTATCA-TAGTACTATTTTAACTATCATAT
*
451759 CTATTATTTTAAATTATCATAAGTACTATTTAAACTTATCATAT
1 C-ATTATTTTAAATTATCAT-AGTACTATTTTAAC-TATCATAT
*
451803 CATTA-TTTAGATTTATCAT-GTACTATTTT
1 CATTATTTTA-AATTATCATAGTACTATTTT
451832 TTTTAGTGTG
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
40 1 0.02
41 26 0.43
42 14 0.23
43 19 0.31
44 1 0.02
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.53
Consensus pattern (41 bp):
CATTATTTTAAATTATCATAGTACTATTTTAACTATCATAT
Found at i:451811 original size:21 final size:20
Alignment explanation
Indices: 451743--451821 Score: 56
Period size: 21 Copynumber: 3.8 Consensus size: 20
451733 ATCATTAGTT
*
451743 TTATTTTAA-TATCATA-CTA
1 TTATTTAAATTATCATATC-A
451762 TTATTTTAAATTATCATAAGT-A
1 TTA-TTTAAATTATCAT-A-TCA
*
451784 CTATTTAAACTTATCATATCA
1 TTATTTAAA-TTATCATATCA
*
451805 TTATTTAGATTTATCAT
1 TTATTTA-AATTATCAT
451822 GTACTATTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
19 3 0.06
20 6 0.12
21 27 0.56
22 12 0.25
ACGTcount: A:0.37, C:0.10, G:0.03, T:0.51
Consensus pattern (20 bp):
TTATTTAAATTATCATATCA
Found at i:453702 original size:3 final size:3
Alignment explanation
Indices: 453694--453740 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
453684 TAATAGTAAT
453694 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
453741 TAATAGCATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:456477 original size:46 final size:44
Alignment explanation
Indices: 456384--456477 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 44
456374 ATTACAACAT
456384 CATTCCATTCAACCAAACACAAGAATACTATTACAACTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAACTCTATTC
* *
456428 CATTCCATTCAACCAAACA-ATTGAATTACTTATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACA-AGAA-TAC-TATTACAACTCTATTC
456474 CATT
1 CATT
456478 ACAGCTCTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
43 1 0.02
44 22 0.49
45 3 0.07
46 19 0.42
ACGTcount: A:0.37, C:0.28, G:0.03, T:0.32
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAACTCTATTC
Found at i:456480 original size:16 final size:16
Alignment explanation
Indices: 456459--456513 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
456449 TGAATTACTT
456459 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
456475 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
456491 ATTATAGCTCTATTCC
1 ATTACAGCTCTATTCC
456507 ATTACAG
1 ATTACAG
456514 TGAACCAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:458136 original size:42 final size:42
Alignment explanation
Indices: 458012--458155 Score: 200
Period size: 42 Copynumber: 3.4 Consensus size: 42
458002 ATGTCGCTAA
* *
458012 CTTTTGCGGCGCTTACAGAAAAAAATGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTA-AG-AAAAAACGCCGCTAAAGATCATGTT
*
458056 CTTTAACGGCG-TTAAGGAAATAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAA-GAAA-AAACGCCGCTAAAGATCATGTT
* *
458099 CTTTAGCGGCGCTTATGAAAAAACGACGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAAGAAAAAACGCCGCTAAAGATCATGTT
458141 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
458156 GNNNNNNNNN
Statistics
Matches: 91, Mismatches: 6, Indels: 8
0.87 0.06 0.08
Matches are distributed among these distances:
42 40 0.44
43 39 0.43
44 12 0.13
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAAGAAAAAACGCCGCTAAAGATCATGTT
Found at i:458544 original size:21 final size:21
Alignment explanation
Indices: 458517--458566 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
458507 CTGTTTCTAT
*
458517 ATCTGCTTCTCTCGCTGCGGC
1 ATCTGCTTCTCTCGCTGCCGC
*
458538 CTCTGCTTCTCTCGCTGCCGC
1 ATCTGCTTCTCTCGCTGCCGC
458559 ATCTGCTT
1 ATCTGCTT
458567 TAAGTTGTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.04, C:0.40, G:0.20, T:0.36
Consensus pattern (21 bp):
ATCTGCTTCTCTCGCTGCCGC
Found at i:465657 original size:61 final size:61
Alignment explanation
Indices: 465566--465713 Score: 174
Period size: 61 Copynumber: 2.4 Consensus size: 61
465556 TAAAAAATAT
* * * *
465566 AATTATTTACAAAACGTGTAAAATTGATACTTA-TAAA-TTTTATTAATAATAAATCTAGAAC
1 AATTATTTACAAAACTTATAAATTTAATAC-TACTAAATTTTTA-TAATAATAAATCTAGAAC
* * * * * *
465627 ACTTTTTTAGAAAACTTATAAATTTAATACTACTAAATTTTTATACTAATAAATTTAGAAT
1 AATTATTTACAAAACTTATAAATTTAATACTACTAAATTTTTATAATAATAAATCTAGAAC
465688 AATTATTTACAAAACTTATAAATTTA
1 AATTATTTACAAAACTTATAAATTTA
465714 GAAAACTTAT
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
60 2 0.03
61 65 0.90
62 5 0.07
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (61 bp):
AATTATTTACAAAACTTATAAATTTAATACTACTAAATTTTTATAATAATAAATCTAGAAC
Found at i:465665 original size:15 final size:15
Alignment explanation
Indices: 465644--465683 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
465634 TAGAAAACTT
465644 ATAAATTTAATACTA
1 ATAAATTTAATACTA
* *
465659 CTAAATTTTTATACTA
1 ATAAA-TTTAATACTA
465675 ATAAATTTA
1 ATAAATTTA
465684 GAATAATTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAAATTTAATACTA
Found at i:465718 original size:17 final size:17
Alignment explanation
Indices: 465692--465724 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
465682 TAGAATAATT
465692 ATTTACAAAACTTATAA
1 ATTTACAAAACTTATAA
*
465709 ATTTAGAAAACTTATA
1 ATTTACAAAACTTATA
465725 TAGAAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (17 bp):
ATTTACAAAACTTATAA
Found at i:469721 original size:113 final size:113
Alignment explanation
Indices: 469074--469788 Score: 510
Period size: 114 Copynumber: 6.3 Consensus size: 113
469064 TAAAGATCTT
* * * * * *
469074 TTGCGGCGCTTATCAAAAAGCGCCGCTAATAATATGA-TTTAGCGGCGATTTCTCGTGAA-CGCC
1 TTGCGGCGCTTA-CCAGAAGCGCCGCTAATACT-T-ACTTTAGCGGCGTTTTATCAT-AAGCGCC
** * * * *** * * *
469137 ACTAATTCCAATATACATTAAGATTTAAACGCAGCGTTTCGGT-TAATATATC
62 ACTAATTATAGTATACATCAATACCAAAACGCTGCGTTTTGGTGTGA-ATATC
* * *
469189 TTGCTGCGCTT-CTAGGAAAGCGCCGCTAATAGTATACTTTAGCGGCGTTTT-TCAATAAGCGCC
1 TTGCGGCGCTTACCA-G-AAGCGCCGCTAATACT-TACTTTAGCGGCGTTTTATC-ATAAGCGCC
* * * *
469252 ACTAATTCTAATATACATCAATACC-AAACTCTGCGTTTTGGTGTGTATATC
62 ACTAATTATAGTATACATCAATACCAAAACGCTGCGTTTTGGTGTGAATATC
* * * ** *
469303 TTGCGGCGCTTAAC-GTTAAGCGCCGCTAATACTGTTA-TGTAGCGGTGTTTTATTGTAAACGCC
1 TTGCGGCGCTTACCAG--AAGCGCCGCTAATAC--TTACTTTAGCGGCGTTTTATCATAAGCGCC
* * *
469366 ACTAATTATAGTATACATCAAGACCAAAACGCTGAGTTTTGGT-TAAGAA-ATA
62 ACTAATTATAGTATACATCAATACCAAAACGCTGCGTTTTGGTGT--GAATATC
* * * * **
469418 TAGCGGCGCTTTATCAGAAGCACCGCTAATAGTATACTTTAGCGGCGTTTCCT-ATAAGCGCCAC
1 TTGCGGCGC-TTACCAGAAGCGCCGCTAATACT-TACTTTAGCGGCGTTTTATCATAAGCGCCAC
* * * * *
469482 TAATTCTAATATACCTCAATACC-AAACTCTGCGTTTTGGTGTGCATATC
64 TAATTATAGTATACATCAATACCAAAACGCTGCGTTTTGGTGTGAATATC
* * **
469531 TTGCGGCGCTTAACTGAAAGCGCCGCTAATACTGTTA-TTTAGCGGCGTTTTATTGTAAGCGCCA
1 TTGCGGCGCTTACCAG-AAGCGCCGCTAATAC--TTACTTTAGCGGCGTTTTATCATAAGCGCCA
* * *
469595 CTAATTATAGTATACATCGATACCAAAACGCTGCGTTTTGGT-T-AAGATTT
63 CTAATTATAGTATACATCAATACCAAAACGCTGCGTTTTGGTGTGAATA-TC
* * * *
469645 TTGCGGCGCTTCCCACAATGCGCCGCTATTACTTACTTTAGCGGCGTTTTATCATAATCGCCACT
1 TTGCGGCGCTTACCAGAA-GCGCCGCTAATACTTACTTTAGCGGCGTTTTATCATAAGCGCCACT
* * * * * *
469710 AATTATTGTATATATCAATACAAAAACGATGTGTTTTGGTCTTGAGAT-TC
65 AATTATAGTATACATCAATACCAAAACGCTGCGTTTTGGT-GTGA-ATATC
* * *
469760 -TGCGGCGCATAACCAAAAACGCCGCTAAT
1 TTGCGGCGC-TTACCAGAAGCGCCGCTAAT
469789 TATGTTCTTT
Statistics
Matches: 479, Mismatches: 88, Indels: 67
0.76 0.14 0.11
Matches are distributed among these distances:
112 10 0.02
113 120 0.25
114 195 0.41
115 144 0.30
116 8 0.02
117 2 0.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (113 bp):
TTGCGGCGCTTACCAGAAGCGCCGCTAATACTTACTTTAGCGGCGTTTTATCATAAGCGCCACTA
ATTATAGTATACATCAATACCAAAACGCTGCGTTTTGGTGTGAATATC
Found at i:469749 original size:228 final size:228
Alignment explanation
Indices: 469206--469713 Score: 756
Period size: 228 Copynumber: 2.2 Consensus size: 228
469196 GCTTCTAGGA
469206 AAGCGCCGCTAATAGTATACTTTAGCGGCGTTTTTCAATAAGCGCCACTAATTCTAATATACATC
1 AAGCGCCGCTAATAGTATACTTTAGCGGCGTTTTTC-ATAAGCGCCACTAATTCTAATATACATC
* *
469271 AATACCAAACTCTGCGTTTTGGTGTGTATATCTTGCGGCGCTTAACGTTAAGCGCCGCTAATACT
65 AATACCAAACTCTGCGTTTTGGTGTGCATATCTTGCGGCGCTTAACGTAAAGCGCCGCTAATACT
*
469336 GTTATGTAGCGGTGTTTTATTGTAAACGCCACTAATTATAGTATACATCAAGACCAAAACGCTGA
130 GTTATGTAGCGGCGTTTTATTGTAAACGCCACTAATTATAGTATACATCAAGACCAAAACGCTGA
* *
469401 GTTTTGGTTAAGAAATATAGCGGCGCTTTATCAG
195 GTTTTGGTTAAGAAATATAGCGGCGCTTTACCAC
* * *
469435 AAGCACCGCTAATAGTATACTTTAGCGGCG-TTTCCTATAAGCGCCACTAATTCTAATATACCTC
1 AAGCGCCGCTAATAGTATACTTTAGCGGCGTTTTTC-ATAAGCGCCACTAATTCTAATATACATC
469499 AATACCAAACTCTGCGTTTTGGTGTGCATATCTTGCGGCGCTTAAC-TGAAAGCGCCGCTAATAC
65 AATACCAAACTCTGCGTTTTGGTGTGCATATCTTGCGGCGCTTAACGT-AAAGCGCCGCTAATAC
* * * *
469563 TGTTATTTAGCGGCGTTTTATTGTAAGCGCCACTAATTATAGTATACATCGATACCAAAACGCTG
129 TGTTATGTAGCGGCGTTTTATTGTAAACGCCACTAATTATAGTATACATCAAGACCAAAACGCTG
* * * * *
469628 CGTTTTGGTTAAG-ATTTTTGCGGCGC-TTCCCAC
194 AGTTTTGGTTAAGAAATATAGCGGCGCTTTACCAC
* * *
469661 AATGCGCCGCTATTACT-TACTTTAGCGGCGTTTTATCATAATCGCCACTAATT
1 AA-GCGCCGCTAATAGTATACTTTAGCGGCGTTTT-TCATAAGCGCCACTAATT
469714 ATTGTATATA
Statistics
Matches: 252, Mismatches: 23, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
226 19 0.08
227 40 0.16
228 164 0.65
229 29 0.12
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (228 bp):
AAGCGCCGCTAATAGTATACTTTAGCGGCGTTTTTCATAAGCGCCACTAATTCTAATATACATCA
ATACCAAACTCTGCGTTTTGGTGTGCATATCTTGCGGCGCTTAACGTAAAGCGCCGCTAATACTG
TTATGTAGCGGCGTTTTATTGTAAACGCCACTAATTATAGTATACATCAAGACCAAAACGCTGAG
TTTTGGTTAAGAAATATAGCGGCGCTTTACCAC
Found at i:469785 original size:228 final size:228
Alignment explanation
Indices: 469074--469827 Score: 747
Period size: 228 Copynumber: 3.3 Consensus size: 228
469064 TAAAGATCTT
* * * * * * * *
469074 TTGCGGCGCTTATCAAAAAGCGCCGCTAATAATATGATTTAGCGGCGATTTCTCGTGAA-CGCCA
1 TTGCGGCGCTTAACCAAAAGCGCCGCTAATACTGTTATTTAGCGGCGTTTTATTGT-AAGCGCCA
** * * *** * * * * * * * *
469138 CTAATTCCAATATACATTAAGATTTAAACGCAGCGTTTCGGTTAATATATCTTGCTGCGCTTCTA
65 CTAATTATAGTATACATCAAGACCAAAACGCTGAGTTTTGGTTAAGAAATATAGCGGCGCTT-TA
**
469203 GGA-AAGCGCCGCTAATAGTATACTTTAGCGGCGTTTTTCAATAAGCGCCACTAATTCTAATATA
129 CCACAAGCGCCGCTAATAGTATACTTTAGCGGCGTTTTTC-ATAAGCGCCACTAATTCTAATATA
*
469267 CATCAATACCAAACTCTGCGTTTTGGTGTGTATATC
193 CATCAATACCAAACTCTGCGTTTTGGTGTGCATATC
*** * * *
469303 TTGCGGCGCTTAACGTTAAGCGCCGCTAATACTGTTATGTAGCGGTGTTTTATTGTAAACGCCAC
1 TTGCGGCGCTTAACCAAAAGCGCCGCTAATACTGTTATTTAGCGGCGTTTTATTGTAAGCGCCAC
*
469368 TAATTATAGTATACATCAAGACCAAAACGCTGAGTTTTGGTTAAGAAATATAGCGGCGCTTTATC
66 TAATTATAGTATACATCAAGACCAAAACGCTGAGTTTTGGTTAAGAAATATAGCGGCGCTTTACC
* * * *
469433 AGAAGCACCGCTAATAGTATACTTTAGCGGCG-TTTCCTATAAGCGCCACTAATTCTAATATACC
131 ACAAGCGCCGCTAATAGTATACTTTAGCGGCGTTTTTC-ATAAGCGCCACTAATTCTAATATACA
469497 TCAATACCAAACTCTGCGTTTTGGTGTGCATATC
195 TCAATACCAAACTCTGCGTTTTGGTGTGCATATC
**
469531 TTGCGGCGCTTAACTGAAAGCGCCGCTAATACTGTTATTTAGCGGCGTTTTATTGTAAGCGCCAC
1 TTGCGGCGCTTAACCAAAAGCGCCGCTAATACTGTTATTTAGCGGCGTTTTATTGTAAGCGCCAC
* * * * * * *
469596 TAATTATAGTATACATCGATACCAAAACGCTGCGTTTTGGTTAAG-ATTTTTGCGGCGC-TTCCC
66 TAATTATAGTATACATCAAGACCAAAACGCTGAGTTTTGGTTAAGAAATATAGCGGCGCTTTACC
* * * * ** *
469659 ACAATGCGCCGCTATTACT-TACTTTAGCGGCGTTTTATCATAATCGCCACTAATTATTGTATAT
131 ACAA-GCGCCGCTAATAGTATACTTTAGCGGCGTTTT-TCATAAGCGCCACTAATTCTAATATAC
* ** * * *
469723 ATCAATACAAAAACGATGTGTTTTGGTCTTG-AGAT-
194 ATCAATAC-CAAACTCTGCGTTTTGGT-GTGCATATC
* * * *
469758 TCTGCGGCGCATAACCAAAAACGCCGCTAATTA-TGTTCTTTTA-CGGCGTTTTGCTTG-AAGCG
1 T-TGCGGCGCTTAACCAAAAGCGCCGCTAA-TACTGTT-ATTTAGCGGCGTTTT-ATTGTAAGCG
*
469820 CCGCTAAT
62 CCACTAAT
469828 GCCAGATATT
Statistics
Matches: 442, Mismatches: 72, Indels: 23
0.82 0.13 0.04
Matches are distributed among these distances:
226 19 0.04
227 52 0.12
228 235 0.53
229 136 0.31
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (228 bp):
TTGCGGCGCTTAACCAAAAGCGCCGCTAATACTGTTATTTAGCGGCGTTTTATTGTAAGCGCCAC
TAATTATAGTATACATCAAGACCAAAACGCTGAGTTTTGGTTAAGAAATATAGCGGCGCTTTACC
ACAAGCGCCGCTAATAGTATACTTTAGCGGCGTTTTTCATAAGCGCCACTAATTCTAATATACAT
CAATACCAAACTCTGCGTTTTGGTGTGCATATC
Found at i:470259 original size:24 final size:23
Alignment explanation
Indices: 470232--470277 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 23
470222 TTAATTTAAA
470232 TTTAA-ATTTCATTTAAAATTTATT
1 TTTAACATTTCA-TT-AAATTTATT
470256 TTTAAGCATTTCATTAAATTTA
1 TTTAA-CATTTCATTAAATTTA
470278 AAAATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
24 12 0.60
25 2 0.10
26 6 0.30
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (23 bp):
TTTAACATTTCATTAAATTTATT
Found at i:471726 original size:20 final size:17
Alignment explanation
Indices: 471689--471730 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 17
471679 TCTATTGATT
471689 TTAAAAAAATAAAAAAA
1 TTAAAAAAATAAAAAAA
471706 TTAAAAATAAGTAACAAAAA
1 TTAAAAA-AA-TAA-AAAAA
471726 TTAAA
1 TTAAA
471731 TTGAAGCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 3 0.14
20 10 0.45
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (17 bp):
TTAAAAAAATAAAAAAA
Found at i:472330 original size:12 final size:12
Alignment explanation
Indices: 472315--472344 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
472305 TTATAAGGTT
472315 GTTTATTGACTC
1 GTTTATTGACTC
472327 GTTTA-TGACTC
1 GTTTATTGACTC
472338 GTTTATT
1 GTTTATT
472345 TATTAATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.17, C:0.13, G:0.17, T:0.53
Consensus pattern (12 bp):
GTTTATTGACTC
Found at i:474968 original size:22 final size:22
Alignment explanation
Indices: 474940--474984 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
474930 CAATTCAACT
474940 AGGGCGAATTCAAATAAATCTC
1 AGGGCGAATTCAAATAAATCTC
474962 AGGGCGAATTCAAATAAATCTC
1 AGGGCGAATTCAAATAAATCTC
474984 A
1 A
474985 AACACATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (22 bp):
AGGGCGAATTCAAATAAATCTC
Found at i:475498 original size:30 final size:30
Alignment explanation
Indices: 475430--475671 Score: 234
Period size: 30 Copynumber: 7.7 Consensus size: 30
475420 ATCCTGTGCT
* *
475430 CAAATCAATTCGACAAAATATATGTAAACATATA
1 CAAATCAATTCGGC--AATATA--TATACATATA
* *
475464 CAAATCATTTCGGCAATATATATACATGTA
1 CAAATCAATTCGGCAATATATATACATATA
* *
475494 CAAATCAATTCGACAATGTATAT-CGATATA
1 CAAATCAATTCGGCAATATATATAC-ATATA
* * *
475524 CAAATCAATTCTGCAATGTATATACATGTA
1 CAAATCAATTCGGCAATATATATACATATA
* *
475554 CAAATCAATTCGGCAATGTATATCCATATA
1 CAAATCAATTCGGCAATATATATACATATA
* *
475584 CAAATCAATTCGGCTATATATACATCTATATA
1 CAAATCAATTCGGCAATATATATA-C-ATATA
* * *
475616 TAAATCAATTCGACAATGTATATATTTCCATATA
1 CAAATCAATTCGGCAA--TATATA--TACATATA
475650 CAAATCAATTCGGCAATATATA
1 CAAATCAATTCGGCAATATATA
475672 AAACACATAC
Statistics
Matches: 175, Mismatches: 25, Indels: 18
0.80 0.11 0.08
Matches are distributed among these distances:
29 1 0.01
30 104 0.59
31 2 0.01
32 30 0.17
34 37 0.21
35 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (30 bp):
CAAATCAATTCGGCAATATATATACATATA
Found at i:475546 original size:60 final size:60
Alignment explanation
Indices: 475458--475671 Score: 293
Period size: 60 Copynumber: 3.5 Consensus size: 60
475448 TATATGTAAA
*
475458 CATATACAAATCATTTCGGCAATATATATACATGTACAAATCAATTCGACAATGTATATC
1 CATATACAAATCAATTCGGCAATATATATACATGTACAAATCAATTCGACAATGTATATC
* * * *
475518 GATATACAAATCAATTCTGCAATGTATATACATGTACAAATCAATTCGGCAATGTATATC
1 CATATACAAATCAATTCGGCAATATATATACATGTACAAATCAATTCGACAATGTATATC
* * * *
475578 CATATACAAATCAATTCGGCTATATATACATCTATATATAAATCAATTCGACAATGTATATATTT
1 CATATACAAATCAATTCGGCAATATATATA-C-ATGTACAAATCAATTCGACAATG--TATA--T
475643 C
60 C
475644 CATATACAAATCAATTCGGCAATATATA
1 CATATACAAATCAATTCGGCAATATATA
475672 AAACACATAC
Statistics
Matches: 134, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
60 80 0.60
61 1 0.01
62 20 0.15
64 4 0.03
66 29 0.22
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (60 bp):
CATATACAAATCAATTCGGCAATATATATACATGTACAAATCAATTCGACAATGTATATC
Found at i:475587 original size:90 final size:92
Alignment explanation
Indices: 475430--475671 Score: 274
Period size: 90 Copynumber: 2.6 Consensus size: 92
475420 ATCCTGTGCT
* * * *
475430 CAAATCAATTCGACAAAATATATGTAAACATATACAAATCATTTCGGCAATATATATACATGTAC
1 CAAATCAATTCGAC--AATGTA--TATACATATACAAATCAATTCGGCAATATATATACATATAC
* *
475495 AAATCAATTCGAC-A-ATGTATATCGATATA
62 AAATCAATTCGACTATATATACATCGATATA
* * *
475524 CAAATCAATTCTG-CAATGTATATACATGTACAAATCAATTCGGCAATGTATATCCATATACAAA
1 CAAATCAATTC-GACAATGTATATACATATACAAATCAATTCGGCAATATATATACATATACAAA
* *
475588 TCAATTCGGCTATATATACATCTATATA
65 TCAATTCGACTATATATACATCGATATA
*
475616 TAAATCAATTCGACAATGTATATATTTCCATATACAAATCAATTCGGCAATATATA
1 CAAATCAATTCGACAATGTATATA----CATATACAAATCAATTCGGCAATATATA
475672 AAACACATAC
Statistics
Matches: 126, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
90 47 0.37
91 2 0.02
92 38 0.30
94 12 0.10
95 1 0.01
96 26 0.21
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (92 bp):
CAAATCAATTCGACAATGTATATACATATACAAATCAATTCGGCAATATATATACATATACAAAT
CAATTCGACTATATATACATCGATATA
Found at i:482236 original size:30 final size:30
Alignment explanation
Indices: 482167--482376 Score: 197
Period size: 30 Copynumber: 6.7 Consensus size: 30
482157 ATCCCGTGCT
482167 CAAATCAATTCGGCAATATATATATGTAAACATATA
1 CAAATCAATTCGGC-A-ATATATA--T--ACATATA
* *
482203 CAAATCATTTCGGCAATATATATACATGTA
1 CAAATCAATTCGGCAATATATATACATATA
* *
482233 CAAATCAATTCGGCAATGTATATCCATATA
1 CAAATCAATTCGGCAATATATATACATATA
* * * *
482263 CAAATCAATTCAGCAATGTATATCCATATC
1 CAAATCAATTCGGCAATATATATACATATA
* * *
482293 CAAATCAATTCAGCGATGTATAT-CTATATA
1 CAAATCAATTCGGCAATATATATAC-ATATA
**
482323 CAAATCAATTTTGCAATATATAGTGAACATATA
1 CAAATCAATTCGGCAATATATA-T--ACATATA
*
482356 CAAATCATTTCGGCAATATAT
1 CAAATCAATTCGGCAATATAT
482377 GTAATACCCC
Statistics
Matches: 152, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
29 1 0.01
30 104 0.68
31 1 0.01
32 1 0.01
33 23 0.15
34 8 0.05
35 1 0.01
36 13 0.09
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (30 bp):
CAAATCAATTCGGCAATATATATACATATA
Found at i:483604 original size:36 final size:37
Alignment explanation
Indices: 483558--483647 Score: 103
Period size: 37 Copynumber: 2.4 Consensus size: 37
483548 GTCTCCAATT
* * *
483558 TCACATTTCAATTCAATTTCACTTTTTCACTTTCAA-
1 TCACAATTCAATTCAAATTCACTTTTCCACTTTCAAG
*
483594 TCACAATTCAATTCAAAATTCACTTTTCCATTTTCAAG
1 TCACAATTCAATTC-AAATTCACTTTTCCACTTTCAAG
*
483632 TCA-ATATTCATTTCAA
1 TCACA-ATTCAATTCAA
483648 CTCCACACAA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
36 13 0.28
37 22 0.48
38 11 0.24
ACGTcount: A:0.32, C:0.23, G:0.01, T:0.43
Consensus pattern (37 bp):
TCACAATTCAATTCAAATTCACTTTTCCACTTTCAAG
Found at i:485022 original size:30 final size:30
Alignment explanation
Indices: 484973--485137 Score: 159
Period size: 30 Copynumber: 5.3 Consensus size: 30
484963 TTGGTCATTA
* * *
484973 CAATATATATACATGTACAAATCAATTCGG
1 CAATGTATATCCATATACAAATCAATTCGG
* *
485003 TAATGTATATCTATATACAAATCAATTCGG
1 CAATGTATATCCATATACAAATCAATTCGG
* *
485033 CAACGTATATCCATATACAAATCAATTTGG
1 CAATGTATATCCATATACAAATCAATTCGG
* * * * *
485063 CTATATATACATCTATATATAAATCAATTCGA
1 C-A-ATGTATATCCATATACAAATCAATTCGG
485095 CAATGTATATATTTCCATATACAAATCAATTCGG
1 CAATG--TATA--TCCATATACAAATCAATTCGG
*
485129 CAATATATA
1 CAATGTATA
485138 AAACACATAC
Statistics
Matches: 107, Mismatches: 22, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
30 54 0.50
31 2 0.02
32 29 0.27
34 22 0.21
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.34
Consensus pattern (30 bp):
CAATGTATATCCATATACAAATCAATTCGG
Found at i:485104 original size:34 final size:34
Alignment explanation
Indices: 484988--485137 Score: 131
Period size: 34 Copynumber: 4.7 Consensus size: 34
484978 TATATACATG
* *
484988 TACAAATCAATTCGG---TA-ATGTATATCTATA
1 TACAAATCAATTCGGCAATATATATACATCTATA
**
485018 TACAAATCAATTCGGCAACGTATAT-C--C-ATA
1 TACAAATCAATTCGGCAATATATATACATCTATA
*
485048 TACAAATCAATTTGGC--TATATATACATCTATA
1 TACAAATCAATTCGGCAATATATATACATCTATA
* * * ** *
485080 TATAAATCAATTCGACAATGTATATATTTCCATA
1 TACAAATCAATTCGGCAATATATATACATCTATA
485114 TACAAATCAATTCGGCAATATATA
1 TACAAATCAATTCGGCAATATATA
485138 AAACACATAC
Statistics
Matches: 93, Mismatches: 17, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
28 5 0.05
29 1 0.01
30 33 0.35
31 2 0.02
32 16 0.17
34 36 0.39
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.34
Consensus pattern (34 bp):
TACAAATCAATTCGGCAATATATATACATCTATA
Found at i:488422 original size:26 final size:27
Alignment explanation
Indices: 488379--488475 Score: 115
Period size: 27 Copynumber: 3.6 Consensus size: 27
488369 TGTCTCGTCA
* * *
488379 GACTATCTCGTGTTTAACGTCCTATTG
1 GACTACCTCATGTTTAACGTCCTATCG
*
488406 GACTACCTC-TGTTTAACATCCTATCG
1 GACTACCTCATGTTTAACGTCCTATCG
* *
488432 GACTACCTCATGTTTAACGTCTTGTCG
1 GACTACCTCATGTTTAACGTCCTATCG
* *
488459 GACTACTTCCTGTTTAA
1 GACTACCTCATGTTTAA
488476 TGTTCCGTCG
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 24 0.39
27 37 0.61
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (27 bp):
GACTACCTCATGTTTAACGTCCTATCG
Found at i:488485 original size:27 final size:27
Alignment explanation
Indices: 488362--488490 Score: 95
Period size: 27 Copynumber: 4.8 Consensus size: 27
488352 GACTACTCCT
* * * *
488362 TGTTTAATGTCTCGTCAGACTATCTCG
1 TGTTTAACGTCTCGTCGGACTACCTCA
* *
488389 TGTTTAACGTC-CTATTGGACTACCTC-
1 TGTTTAACGTCTC-GTCGGACTACCTCA
* *
488415 TGTTTAACATC-CTATCGGACTACCTCA
1 TGTTTAACGTCTC-GTCGGACTACCTCA
* * *
488442 TGTTTAACGTCTTGTCGGACTACTTCC
1 TGTTTAACGTCTCGTCGGACTACCTCA
*
488469 TGTTTAATGT-TCCGTCGGACTA
1 TGTTTAACGTCT-CGTCGGACTA
488491 TCTATGATGC
Statistics
Matches: 84, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
26 26 0.31
27 58 0.69
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.39
Consensus pattern (27 bp):
TGTTTAACGTCTCGTCGGACTACCTCA
Found at i:488631 original size:45 final size:44
Alignment explanation
Indices: 488582--488695 Score: 147
Period size: 45 Copynumber: 2.5 Consensus size: 44
488572 TTAAAGTATA
* * *
488582 TTTCAGCCATGATTTTACTCATTTATATCACGATGTCATAGCATC
1 TTTCAGCTATGGTCTTACTCATTTA-ATCACGATGTCATAGCATC
* * *
488627 TTTCAGCTACGGTCTTACTTATCTTAATCATGATGTCATAGCATC
1 TTTCAGCTATGGTCTTACTCAT-TTAATCACGATGTCATAGCATC
*
488672 TTTCAACTATGGTCTTACTCATTT
1 TTTCAGCTATGGTCTTACTCATTT
488696 TAGGCGTATA
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
44 2 0.03
45 54 0.92
46 3 0.05
ACGTcount: A:0.25, C:0.22, G:0.11, T:0.42
Consensus pattern (44 bp):
TTTCAGCTATGGTCTTACTCATTTAATCACGATGTCATAGCATC
Found at i:492342 original size:34 final size:34
Alignment explanation
Indices: 492304--492379 Score: 84
Period size: 34 Copynumber: 2.2 Consensus size: 34
492294 TGTAATAAAA
*
492304 AAAATGA-ATAAT-TTACTGATTCCATCTACAGTTC
1 AAAATGACATAATGTT--TGATTCCATCTAAAGTTC
* **
492338 AAAATGACCTCGTGTTTGATTCCATCTAAAGTTC
1 AAAATGACATAATGTTTGATTCCATCTAAAGTTC
492372 AAAATGAC
1 AAAATGAC
492380 CTCGTGTTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
34 32 0.89
35 2 0.06
36 2 0.06
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (34 bp):
AAAATGACATAATGTTTGATTCCATCTAAAGTTC
Found at i:492380 original size:34 final size:34
Alignment explanation
Indices: 492320--492388 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
492310 AATAATTTAC
*
492320 TGATTCCATCTACAGTTCAAAATGACCTCGTGTT
1 TGATTCCATCTAAAGTTCAAAATGACCTCGTGTT
492354 TGATTCCATCTAAAGTTCAAAATGACCTCGTGTT
1 TGATTCCATCTAAAGTTCAAAATGACCTCGTGTT
492388 T
1 T
492389 CAATTTGCAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (34 bp):
TGATTCCATCTAAAGTTCAAAATGACCTCGTGTT
Found at i:496083 original size:17 final size:17
Alignment explanation
Indices: 496061--496093 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
496051 TTGTCATGTA
496061 CAACTCATAATCTTACT
1 CAACTCATAATCTTACT
*
496078 CAACTCATAATTTTAC
1 CAACTCATAATCTTAC
496094 AACCAAGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.27, G:0.00, T:0.36
Consensus pattern (17 bp):
CAACTCATAATCTTACT
Found at i:496641 original size:2 final size:2
Alignment explanation
Indices: 496636--496666 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
496626 ACACACACAC
496636 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
496667 AATACACCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:496719 original size:2 final size:2
Alignment explanation
Indices: 496714--496743 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
496704 ACACACACAC
496714 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
496744 TAATTCACCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:496753 original size:78 final size:78
Alignment explanation
Indices: 496616--496773 Score: 289
Period size: 78 Copynumber: 2.0 Consensus size: 78
496606 ATTTTCAAAT
496616 TCACACACACACACACACACATATATATATATATATATATATATATATATAAATACACCCTCACT
1 TCACACACACACACACACACATATATATATATATATATATATATATATATAAATACACCCTCACT
496681 TCTTAAAAATACA
66 TCTTAAAAATACA
* *
496694 TCACACACACACACACACACATATATATATATATATATATATATATATATTAATTCACCCTCACT
1 TCACACACACACACACACACATATATATATATATATATATATATATATATAAATACACCCTCACT
*
496759 TCTTAAAAATTCA
66 TCTTAAAAATACA
496772 TC
1 TC
496774 TTTATTGGCC
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (78 bp):
TCACACACACACACACACACATATATATATATATATATATATATATATATAAATACACCCTCACT
TCTTAAAAATACA
Found at i:498338 original size:51 final size:51
Alignment explanation
Indices: 498282--498384 Score: 188
Period size: 51 Copynumber: 2.0 Consensus size: 51
498272 ATGCATAAGT
498282 TAGATTTAATTCCTATTTTTAATAATAATATTAAAAAATGCAATACATGTA
1 TAGATTTAATTCCTATTTTTAATAATAATATTAAAAAATGCAATACATGTA
* *
498333 TAGATTTAATTTCTATTTTTAATAATAATATTGAAAAATGCAATACATGTA
1 TAGATTTAATTCCTATTTTTAATAATAATATTAAAAAATGCAATACATGTA
498384 T
1 T
498385 GTTGACTAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.43
Consensus pattern (51 bp):
TAGATTTAATTCCTATTTTTAATAATAATATTAAAAAATGCAATACATGTA
Found at i:504375 original size:6 final size:6
Alignment explanation
Indices: 504364--504410 Score: 85
Period size: 6 Copynumber: 7.7 Consensus size: 6
504354 TTAAAAAGTA
504364 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT ATTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT -TTTT
504411 TAGGAAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
6 36 0.90
7 4 0.10
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTCT
Found at i:513735 original size:31 final size:31
Alignment explanation
Indices: 513675--513743 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
513665 CCTTAACAAC
513675 TCAGTGACTTAAATAAAAGCTTTCAAATAGT
1 TCAGTGACTTAAATAAAAGCTTTCAAATAGT
* * **
513706 TTAGTGACTTAAATGAACA-CTTTTGAATAGT
1 TCAGTGACTTAAAT-AAAAGCTTTCAAATAGT
513737 TCAGTGA
1 TCAGTGA
513744 TCATTTTGTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 29 0.91
32 3 0.09
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.35
Consensus pattern (31 bp):
TCAGTGACTTAAATAAAAGCTTTCAAATAGT
Found at i:515324 original size:111 final size:110
Alignment explanation
Indices: 515128--515336 Score: 330
Period size: 111 Copynumber: 1.9 Consensus size: 110
515118 AAAATTCAAG
* *
515128 AGGATATTCAGCAATTTGGCTAAACGTGAAATCGAAACCCAGCACCTTAGGGCACGTTTCTCGAA
1 AGGATATTCAGCAATTTGGCTAAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAA
515193 TTTCCAAACGTAAAACATTGCCTTATTTTTGAAAAGTTTTTTGAAA
66 TTTCCAAACGTAAAACATTGCCTTA-TTTTGAAAAGTTTTTTGAAA
* * * *
515239 AGGATATTTAGCTATTTGG-TCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
1 AGGATATTCAGCAATTTGGCT-AAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGA
*
515303 ATTTCCAAACGTAAAATATTGCCTTATTTTGAAA
65 ATTTCCAAACGTAAAACATTGCCTTATTTTGAAA
515337 TATTTTCCCC
Statistics
Matches: 90, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
110 9 0.10
111 81 0.90
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (110 bp):
AGGATATTCAGCAATTTGGCTAAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAA
TTTCCAAACGTAAAACATTGCCTTATTTTGAAAAGTTTTTTGAAA
Found at i:520608 original size:7 final size:7
Alignment explanation
Indices: 520586--520817 Score: 402
Period size: 7 Copynumber: 33.7 Consensus size: 7
520576 TTAGCCTCTC
520586 CATTTTT
1 CATTTTT
*
520593 CA-CTTT
1 CATTTTT
520599 CATTTTT
1 CATTTTT
520606 CATTTTT
1 CATTTTT
520613 CATTTTT
1 CATTTTT
520620 CATTTTT
1 CATTTTT
520627 CATTTTT
1 CATTTTT
520634 CATTTTT
1 CATTTTT
520641 CATTTTT
1 CATTTTT
520648 CATTTTT
1 CATTTTT
520655 CATTTTT
1 CATTTTT
520662 CATTTTT
1 CATTTTT
520669 CATTTTT
1 CATTTTT
520676 CATTTTT
1 CATTTTT
520683 CATTTTT
1 CATTTTT
520690 CATTTTT
1 CATTTTT
520697 CATTTTT
1 CATTTTT
520704 CATTTTT
1 CATTTTT
520711 CATTTTT
1 CATTTTT
520718 CATTTTT
1 CATTTTT
520725 CATTTTT
1 CATTTTT
520732 CATTTTTT
1 CA-TTTTT
*
520740 CA-CTTT
1 CATTTTT
520746 CATTTTT
1 CATTTTT
520753 CATTTTT
1 CATTTTT
520760 CATTTTT
1 CATTTTT
520767 CATTTTT
1 CATTTTT
520774 CATTTTT
1 CATTTTT
520781 CATTTTT
1 CATTTTT
520788 CA-TTTT
1 CATTTTT
520794 CA-TTTT
1 CATTTTT
520800 CATTTTT
1 CATTTTT
520807 CA-TTTT
1 CATTTTT
520813 CATTT
1 CATTT
520818 ATTTAATTTT
Statistics
Matches: 216, Mismatches: 4, Indels: 10
0.94 0.02 0.04
Matches are distributed among these distances:
6 28 0.13
7 181 0.84
8 7 0.03
ACGTcount: A:0.15, C:0.16, G:0.00, T:0.70
Consensus pattern (7 bp):
CATTTTT
Found at i:526456 original size:3 final size:3
Alignment explanation
Indices: 526448--526510 Score: 90
Period size: 3 Copynumber: 20.7 Consensus size: 3
526438 AAATAAAGCC
* * *
526448 AAT AAT AATT AAT AAT AGT AGT AAT AAT AAT AAT AAC AAT AAT AAT
1 AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
526494 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
526511 CACTAAAATA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
3 52 0.95
4 3 0.05
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:527226 original size:20 final size:20
Alignment explanation
Indices: 527182--527227 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
527172 AAATAGTTTC
*
527182 GAAAAAAAATAAAGAGAAAA
1 GAAAATAAATAAAGAGAAAA
*
527202 G-AAATAAA-AAATAGAAAA
1 GAAAATAAATAAAGAGAAAA
527220 GGAAAATA
1 -GAAAATA
527228 GATATACCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 9 0.41
19 7 0.32
20 6 0.27
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (20 bp):
GAAAATAAATAAAGAGAAAA
Found at i:528055 original size:19 final size:19
Alignment explanation
Indices: 528031--528068 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
528021 ATGATAAATG
528031 AATAATTAACTAAGATTAA
1 AATAATTAACTAAGATTAA
* *
528050 AATAATTAATTAAGTTTAA
1 AATAATTAACTAAGATTAA
528069 TTAATAAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (19 bp):
AATAATTAACTAAGATTAA
Found at i:530055 original size:2 final size:2
Alignment explanation
Indices: 530048--530081 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
530038 TGTATTGCAA
530048 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
530082 GGCGTTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:530758 original size:28 final size:28
Alignment explanation
Indices: 530692--530762 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
530682 ATTCAGACCC
*
530692 AAATATAAAAATATAATTAAAGTTCAAA
1 AAATATAAAAATATAATTAAAATTCAAA
*
530720 AAATGA-AAAAAAATAATTAAAATGT-AATA
1 AAAT-ATAAAAATATAATTAAAAT-TCAA-A
*
530749 TAATATAAAAATAT
1 AAATATAAAAATAT
530763 TCTATTAATG
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
28 22 0.63
29 13 0.37
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.28
Consensus pattern (28 bp):
AAATATAAAAATATAATTAAAATTCAAA
Found at i:533638 original size:13 final size:13
Alignment explanation
Indices: 533620--533644 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
533610 CTCATTGCGC
533620 AAAAAATAAAAAT
1 AAAAAATAAAAAT
533633 AAAAAATAAAAA
1 AAAAAATAAAAA
533645 AATAATTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:537745 original size:45 final size:45
Alignment explanation
Indices: 537696--537781 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 45
537686 TCTTGTTTAC
*** *
537696 CATGATGCCATAGTGTCTTTCAACCATGGTCTTACACATTTCCAT
1 CATGATGCCATAACATCTTTCAACCATGGTCGTACACATTTCCAT
* * *
537741 CATGATGTCATAACATCTTTCAACTATGGTCGTACTCATTT
1 CATGATGCCATAACATCTTTCAACCATGGTCGTACACATTT
537782 TTGGTGTATA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 34 1.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (45 bp):
CATGATGCCATAACATCTTTCAACCATGGTCGTACACATTTCCAT
Found at i:540706 original size:32 final size:32
Alignment explanation
Indices: 540643--540707 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
540633 TAATAACACG
540643 TTGTCATTTATATAGACATGTCTCATAACCAT
1 TTGTCATTTATATAGACATGTCTCATAACCAT
540675 TTGTCATTTATATAGACATGTCTCATAACCAT
1 TTGTCATTTATATAGACATGTCTCATAACCAT
540707 T
1 T
540708 CAATATACTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.42
Consensus pattern (32 bp):
TTGTCATTTATATAGACATGTCTCATAACCAT
Found at i:542128 original size:43 final size:42
Alignment explanation
Indices: 542071--542220 Score: 135
Period size: 44 Copynumber: 3.5 Consensus size: 42
542061 AATGCCAACG
* * * * *
542071 TCCCAGAC-GTGGTCTTACATGTACTCAAATAACTATGCCACTA
1 TCCCAGACAG-GGTCTTACACGTAATCAAAT-ACGACGCCAATA
* *
542114 TCCCAGACAGGGTCTTACACGTAATCACATACGACGCCAATG
1 TCCCAGACAGGGTCTTACACGTAATCAAATACGACGCCAATA
* * *
542156 TCCCAGACATGGTCTTACACGTAAATCTCAAAT-CGAGGCCAATG
1 TCCCAGACAGGGTCTTACACGT-AA--TCAAATACGACGCCAATA
542200 TCCCAGAC-GTGGTCTTACACG
1 TCCCAGACAG-GGTCTTACACG
542221 ATGTCACAGT
Statistics
Matches: 91, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
42 29 0.32
43 27 0.30
44 30 0.33
45 5 0.05
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.23
Consensus pattern (42 bp):
TCCCAGACAGGGTCTTACACGTAATCAAATACGACGCCAATA
Found at i:542164 original size:42 final size:42
Alignment explanation
Indices: 542064--542220 Score: 163
Period size: 43 Copynumber: 3.7 Consensus size: 42
542054 CTCGTACAAT
* * * * * *
542064 GCCAACGTCCCAGACGTGGTCTTACATGTACTCAAATAACTAT
1 GCCAATGTCCCAGACGTGGTCTTACACGTAATCACAT-ACGAC
* *
542107 GCCACTATCCCAGACAG-GGTCTTACACGTAATCACATACGAC
1 GCCAATGTCCCAGAC-GTGGTCTTACACGTAATCACATACGAC
* * * *
542149 GCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAAATCGAG
1 GCCAATGTCCCAGACGTGGTCTTACACGT-AATCACATA-CGAC
542193 GCCAATGTCCCAGACGTGGTCTTACACG
1 GCCAATGTCCCAGACGTGGTCTTACACG
542221 ATGTCACAGT
Statistics
Matches: 95, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
42 28 0.29
43 36 0.38
44 31 0.33
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.22
Consensus pattern (42 bp):
GCCAATGTCCCAGACGTGGTCTTACACGTAATCACATACGAC
Found at i:548642 original size:24 final size:24
Alignment explanation
Indices: 548610--548699 Score: 90
Period size: 24 Copynumber: 3.7 Consensus size: 24
548600 GTTTTGTGGT
548610 AAAGGATGAATTGACGGTATATGC
1 AAAGGATGAATTGACGGTATATGC
** *
548634 AAAGGATGAATTGATAGTAAAATGC
1 AAAGGATGAATTGACGGT-ATATGC
** *
548659 AAAGGATGAATTGGTGATATATGC
1 AAAGGATGAATTGACGGTATATGC
* * *
548683 AGATGATGAATTAACGG
1 AAAGGATGAATTGACGG
548700 CAAATGTACC
Statistics
Matches: 52, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
24 32 0.62
25 20 0.38
ACGTcount: A:0.41, C:0.06, G:0.28, T:0.26
Consensus pattern (24 bp):
AAAGGATGAATTGACGGTATATGC
Found at i:548664 original size:25 final size:24
Alignment explanation
Indices: 548610--548671 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 24
548600 GTTTTGTGGT
* *
548610 AAAGGATGAATTGACGGTATATGC
1 AAAGGATGAATTGACAGTAAATGC
*
548634 AAAGGATGAATTGATAGTAAAATGC
1 AAAGGATGAATTGACAGT-AAATGC
548659 AAAGGATGAATTG
1 AAAGGATGAATTG
548672 GTGATATATG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
24 16 0.47
25 18 0.53
ACGTcount: A:0.44, C:0.05, G:0.27, T:0.24
Consensus pattern (24 bp):
AAAGGATGAATTGACAGTAAATGC
Found at i:548874 original size:42 final size:41
Alignment explanation
Indices: 548802--548925 Score: 131
Period size: 42 Copynumber: 3.0 Consensus size: 41
548792 TGAGTTTCCA
* * *
548802 TTCAACCCTAATGGGTTTTCGTTCAGCTCTTTTGAGCTTCAG
1 TTCAACCCTTAT-GGTTTTCCTTCAGCTCTTATGAGCTTCAG
* * * *
548844 TTTAACTCTTATAGGTTTTCCTTCAGCTCTTACGAGCTTCCG
1 TTCAACCCTTAT-GGTTTTCCTTCAGCTCTTATGAGCTTCAG
* * *
548886 TTCAACCCTTATGGGTTTCCGTTTAGCTCTCATGAGCTTC
1 TTCAACCCTTATGGTTTTCC-TTCAGCTCTTATGAGCTTC
548926 TATTTAGCCT
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
41 7 0.10
42 60 0.90
ACGTcount: A:0.16, C:0.26, G:0.17, T:0.41
Consensus pattern (41 bp):
TTCAACCCTTATGGTTTTCCTTCAGCTCTTATGAGCTTCAG
Found at i:548889 original size:21 final size:21
Alignment explanation
Indices: 548821--548925 Score: 70
Period size: 21 Copynumber: 5.0 Consensus size: 21
548811 AATGGGTTTT
*
548821 CGTTCAGCTCTTTTGAGCTTC
1 CGTTCAGCTCTTATGAGCTTC
* * * *
548842 AGTTTAACTCTTAT-AGGTTTTC
1 CGTTCAGCTCTTATGA-G-CTTC
*
548864 C-TTCAGCTCTTACGAGCTTC
1 CGTTCAGCTCTTATGAGCTTC
* * * *
548884 CGTTCAACCCTTATGGGTTTC
1 CGTTCAGCTCTTATGAGCTTC
* *
548905 CGTTTAGCTCTCATGAGCTTC
1 CGTTCAGCTCTTATGAGCTTC
548926 TATTTAGCCT
Statistics
Matches: 59, Mismatches: 21, Indels: 8
0.67 0.24 0.09
Matches are distributed among these distances:
20 5 0.08
21 50 0.85
22 4 0.07
ACGTcount: A:0.15, C:0.27, G:0.17, T:0.41
Consensus pattern (21 bp):
CGTTCAGCTCTTATGAGCTTC
Found at i:550838 original size:21 final size:21
Alignment explanation
Indices: 550812--550917 Score: 131
Period size: 21 Copynumber: 5.0 Consensus size: 21
550802 TTCGGGTGGA
*
550812 TCACCTCTTACGAGCTTCTGT
1 TCACCTCTTATGAGCTTCTGT
* *
550833 TCACCTCTTACGAGCTTATGT
1 TCACCTCTTATGAGCTTCTGT
* * *
550854 TCAGCTCTTTTGAGCTTCCGT
1 TCACCTCTTATGAGCTTCTGT
* *
550875 TCAGCTCTTTTGAGCTTCTGT
1 TCACCTCTTATGAGCTTCTGT
*
550896 TCAACTCTTATGAGCTTCTGT
1 TCACCTCTTATGAGCTTCTGT
550917 T
1 T
550918 AGCGTGTTCG
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 76 1.00
ACGTcount: A:0.14, C:0.27, G:0.16, T:0.42
Consensus pattern (21 bp):
TCACCTCTTATGAGCTTCTGT
Found at i:552392 original size:68 final size:69
Alignment explanation
Indices: 552282--552416 Score: 263
Period size: 68 Copynumber: 2.0 Consensus size: 69
552272 TTTAAAGGCC
552282 TTGTATACATGTACAAATTTCTTGTAGGTTTATGCTTGAAAGGGTGAAAGAAATGGCTTGGAAGT
1 TTGTATACATGTACAAATTTCTTGTAGGTTTATGCTTGAAAGGGTGAAAGAAATGGCTTGGAAGT
552347 GGCT
66 GGCT
552351 TTGTATACATGTACAAATTT-TTGTAGGTTTATGCTTGAAAGGGTGAAAGAAATGGCTTGGAAGT
1 TTGTATACATGTACAAATTTCTTGTAGGTTTATGCTTGAAAGGGTGAAAGAAATGGCTTGGAAGT
552415 GG
66 GG
552417 TCATTTTCTT
Statistics
Matches: 66, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
68 46 0.70
69 20 0.30
ACGTcount: A:0.30, C:0.07, G:0.28, T:0.35
Consensus pattern (69 bp):
TTGTATACATGTACAAATTTCTTGTAGGTTTATGCTTGAAAGGGTGAAAGAAATGGCTTGGAAGT
GGCT
Found at i:554632 original size:187 final size:186
Alignment explanation
Indices: 554317--554691 Score: 741
Period size: 187 Copynumber: 2.0 Consensus size: 186
554307 GATAGAAGAG
554317 TTAAATTTATTGAATTATTTAAAATTAGGGTTAATCTGAAAAAAGGTACAAGTGAAAAAATTATT
1 TTAAATTTATTGAATTATTTAAAATTAGGGTTAATCTGAAAAAAGGTACAAGTGAAAAAATTATT
554382 ATAATTTATTGTTAATATTTTAATATATAAAATATAAATTGTAAATATTTTTAAGCAATAAATAT
66 ATAATTTATTGTTAATATTTTAATATATAAAATATAAATTGTAAATATTTTTAAGCAATAAATAT
554447 TAATTATTTATAAAATTTAATTAGAATATATAAACTATATTTTAAATATTTAAATAT
131 TAATTATTTATAAAATTTAATTAGAATATAT-AACTATATTTTAAATATTTAAATAT
554504 TTAAATTTATTGAATTATTTAAAATTAGGGTTAATCTGAAAAAAGGTACAAGTGAAAAAATTATT
1 TTAAATTTATTGAATTATTTAAAATTAGGGTTAATCTGAAAAAAGGTACAAGTGAAAAAATTATT
554569 ATAATTTATTGTTAATATTTTAATATATAAAATATAAATTGTAAATATTTTTAAGCAATAAATAT
66 ATAATTTATTGTTAATATTTTAATATATAAAATATAAATTGTAAATATTTTTAAGCAATAAATAT
554634 TAATTATTTATAAAATTTAATTAGAATATATAACTATATTTTAAATATTTAAATAT
131 TAATTATTTATAAAATTTAATTAGAATATATAACTATATTTTAAATATTTAAATAT
554690 TT
1 TT
554692 GTAATTAGTA
Statistics
Matches: 188, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
186 27 0.14
187 161 0.86
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (186 bp):
TTAAATTTATTGAATTATTTAAAATTAGGGTTAATCTGAAAAAAGGTACAAGTGAAAAAATTATT
ATAATTTATTGTTAATATTTTAATATATAAAATATAAATTGTAAATATTTTTAAGCAATAAATAT
TAATTATTTATAAAATTTAATTAGAATATATAACTATATTTTAAATATTTAAATAT
Found at i:557137 original size:17 final size:17
Alignment explanation
Indices: 557115--557147 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
557105 TTTATAAATC
557115 TTTTTTT-AATAAAATAG
1 TTTTTTTCAA-AAAATAG
557132 TTTTTTTCAAAAAATA
1 TTTTTTTCAAAAAATA
557148 ATTTAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (17 bp):
TTTTTTTCAAAAAATAG
Found at i:559273 original size:23 final size:23
Alignment explanation
Indices: 559226--559273 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
559216 GGATTAAAAA
**
559226 AATATATTTATTTATTTTGGTAG
1 AATATATTTATTTATTTTAATAG
559249 AATATATTTATTTA-TTTAATCAG
1 AATATATTTATTTATTTTAAT-AG
559272 AA
1 AA
559274 CTGAGACTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (23 bp):
AATATATTTATTTATTTTAATAG
Found at i:562605 original size:21 final size:21
Alignment explanation
Indices: 562581--562623 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
562571 ACCTCTTCTA
*
562581 AAGTTAAAAGTCAAAACCATT
1 AAGTTAAAAGACAAAACCATT
*
562602 AAGTTATAAGACAAAACCATT
1 AAGTTAAAAGACAAAACCATT
562623 A
1 A
562624 CTTTGTTTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.53, C:0.14, G:0.09, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAGACAAAACCATT
Found at i:563763 original size:13 final size:15
Alignment explanation
Indices: 563734--563769 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
563724 CAATTTAACT
563734 ATATAT-TTTTAAAA
1 ATATATGTTTTAAAA
563748 ATA-ATGTTTT-AAA
1 ATATATGTTTTAAAA
563761 ATATATGTT
1 ATATATGTT
563770 ACAAATTGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (15 bp):
ATATATGTTTTAAAA
Found at i:565354 original size:113 final size:113
Alignment explanation
Indices: 565196--565448 Score: 382
Period size: 113 Copynumber: 2.2 Consensus size: 113
565186 AAAATGAGCA
** * *
565196 TTAGCGGCGTTTTTCAGCAAGCGCCACAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGTTT
1 TTAGCGGCGTTTTTCAAAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCATTTTCTGAGTTT
* *
565261 TTGGGGCTTTAGTGACGTTTTTTAAAAAGCGTCGCTAATGCATGGGGCT
66 TAGGGGCTTTAGTGACGTTTTTTAAAAAGCGTCGCTAAAGCAT-GGGCT
* * *
565310 TTAGCGGCATTTTCCAAAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGTCATTTTTTGAGTTT
1 TTAGCGGCGTTTTTCAAAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCATTTTCTGAGTTT
*
565374 TAGGGGCTTTAGTGGCGTTTTTTAAAAAGCGTCGCTAAAGCATGGGCT
66 TAGGGGCTTTAGTGACGTTTTTTAAAAAGCGTCGCTAAAGCATGGGCT
**
565422 TTAGCGGCGTTTTTGGAAAAGCGCCGC
1 TTAGCGGCGTTTTTCAAAAAGCGCCGC
565449 TAATGCTATT
Statistics
Matches: 125, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
112 28 0.22
113 75 0.60
114 22 0.18
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (113 bp):
TTAGCGGCGTTTTTCAAAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCATTTTCTGAGTTT
TAGGGGCTTTAGTGACGTTTTTTAAAAAGCGTCGCTAAAGCATGGGCT
Found at i:565687 original size:7 final size:7
Alignment explanation
Indices: 565677--565929 Score: 77
Period size: 7 Copynumber: 35.7 Consensus size: 7
565667 TATTATTATT
565677 GTTTAGG
1 GTTTAGG
565684 GTTTAGG
1 GTTTAGG
*
565691 GTTAAGG
1 GTTTAGG
* *
565698 GTATATG
1 GTTTAGG
*
565705 GTTTAAG
1 GTTTAGG
**
565712 GTTTAAA
1 GTTTAGG
565719 GTTTAGG
1 GTTTAGG
565726 AGTTACTA--
1 -GTT--TAGG
* *
565734 TTTTAAG
1 GTTTAGG
**
565741 GTTTATA
1 GTTTAGG
* *
565748 GATTATG
1 GTTTAGG
**
565755 GTTTATA
1 GTTTAGG
*
565762 GTTTATGC
1 GTTTA-GG
*
565770 GTTTAAG
1 GTTTAGG
565777 GTTTAAGG
1 GTTT-AGG
*
565785 G-TTACG
1 GTTTAGG
*
565791 GTTTATG
1 GTTTAGG
*
565798 GTTTAAG
1 GTTTAGG
565805 GTTTAAGG
1 GTTT-AGG
*
565813 G-TTAAG
1 GTTTAGG
565819 GTTTAGG
1 GTTTAGG
*
565826 GGTTAGG
1 GTTTAGG
*
565833 GGTTAGG
1 GTTTAGG
*
565840 AGTTGAGG
1 -GTTTAGG
* *
565848 GTTAAGA
1 GTTTAGG
*
565855 GTTAAGG
1 GTTTAGG
*
565862 G-TTATG
1 GTTTAGG
*
565868 GTTTATG
1 GTTTAGG
565875 GTTTAAGG
1 GTTT-AGG
*
565883 G-TTGGG
1 GTTTAGG
**
565889 GTTTAAT
1 GTTTAGG
565896 GTTTAGG
1 GTTTAGG
*
565903 GGTTAGG
1 GTTTAGG
*
565910 GGTTAGGG
1 GTTTA-GG
*
565918 GTTTAAG
1 GTTTAGG
565925 GTTTA
1 GTTTA
565930 TGTTTTATGA
Statistics
Matches: 185, Mismatches: 46, Indels: 30
0.71 0.18 0.11
Matches are distributed among these distances:
5 2 0.01
6 13 0.07
7 140 0.76
8 28 0.15
10 2 0.01
ACGTcount: A:0.23, C:0.01, G:0.35, T:0.41
Consensus pattern (7 bp):
GTTTAGG
Found at i:565804 original size:28 final size:29
Alignment explanation
Indices: 565762--565823 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 29
565752 ATGGTTTATA
*
565762 GTTTATGCGTTTAAGGTTTAAGGGTTACG
1 GTTTATGCGTTTAAGGTTTAAGGGTTAAG
565791 GTTTATG-GTTTAAGGTTTAAGGGTTAAG
1 GTTTATGCGTTTAAGGTTTAAGGGTTAAG
565819 GTTTA
1 GTTTA
565824 GGGGTTAGGG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 25 0.78
29 7 0.22
ACGTcount: A:0.23, C:0.03, G:0.31, T:0.44
Consensus pattern (29 bp):
GTTTATGCGTTTAAGGTTTAAGGGTTAAG
Found at i:565835 original size:21 final size:21
Alignment explanation
Indices: 565772--565929 Score: 86
Period size: 21 Copynumber: 7.5 Consensus size: 21
565762 GTTTATGCGT
* * *
565772 TTAAGGTTTAAGGGTTACGGT
1 TTAAGGTTTAGGGGTTAAGGG
* * *
565793 TTATGGTTTAAGGTTTAAGGG
1 TTAAGGTTTAGGGGTTAAGGG
*
565814 TTAAGGTTTAGGGGTTAGGGG
1 TTAAGGTTTAGGGGTTAAGGG
* * *
565835 TTAGGAGTTGA-GGGTTAAGAG
1 TTAAG-GTTTAGGGGTTAAGGG
* * * * *
565856 TTAAGGGTTATGGTTTATGGT
1 TTAAGGTTTAGGGGTTAAGGG
* * *
565877 TTAAGGGTT-GGGGTTTAATGT
1 TTAAGGTTTAGGGG-TTAAGGG
* * *
565898 TTAGGGGTTAGGGGTTAGGGG
1 TTAAGGTTTAGGGGTTAAGGG
565919 TTTAAGGTTTA
1 -TTAAGGTTTA
565930 TGTTTTATGA
Statistics
Matches: 103, Mismatches: 29, Indels: 9
0.73 0.21 0.06
Matches are distributed among these distances:
20 5 0.05
21 82 0.80
22 16 0.16
ACGTcount: A:0.22, C:0.01, G:0.39, T:0.39
Consensus pattern (21 bp):
TTAAGGTTTAGGGGTTAAGGG
Found at i:566293 original size:42 final size:42
Alignment explanation
Indices: 566214--566302 Score: 108
Period size: 42 Copynumber: 2.1 Consensus size: 42
566204 ATAATTTTTT
* *** *
566214 TAAAGGTTATGTTTTTAGTGGCGTTTTTGTGAGAAGCGCCGC
1 TAAAGGTTATGTTTTTAGTGGCATTTGAATGAAAAGCGCCGC
*
566256 TAAAGGTT-TGTTCTTTAGTGGCATTTGAATGAAAAGCGCTGC
1 TAAAGGTTATGTT-TTTAGTGGCATTTGAATGAAAAGCGCCGC
566298 TAAAG
1 TAAAG
566303 ATATTATTTG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
41 4 0.10
42 36 0.90
ACGTcount: A:0.25, C:0.11, G:0.28, T:0.36
Consensus pattern (42 bp):
TAAAGGTTATGTTTTTAGTGGCATTTGAATGAAAAGCGCCGC
Found at i:566407 original size:117 final size:114
Alignment explanation
Indices: 566192--566419 Score: 323
Period size: 117 Copynumber: 2.0 Consensus size: 114
566182 TATAATATAA
* * *
566192 TATTTGATTAAAATAATTTTTTTAAAGGTTATGTTTTTAGTGGCGTTTTTGTGAGAAGCGCCGCT
1 TATTTGATTAAAATAATTTTTTTAAAGGTTAGGTTTTTAGCGGCGTTTTTGCGAGAAGCGCCGCT
* * * * *
566257 AAAGGTTTGTTCTTTAGTGGCATTTGAATGAAAAGCGCTGCTAAAGATAT
66 AAAGGTGTGGTCTATAGCGGCATTTG-ATGAAAAGCGCCGCTAAAGATAT
566307 TATTTGATTAAAATAATTTTTTTTAAAGGTTAGGTTTTTAGCGGCGTTTTTTGCGAGAAGCGCCG
1 TATTTGATTAAAATAA-TTTTTTTAAAGGTTAGGTTTTTAGCGGCG-TTTTTGCGAGAAGCGCCG
*
566372 CTAAAGGTCGTGGTCTATAGCGGCGTTTG-TCGAAAAGCGCCGCTAAAG
64 CTAAAGGT-GTGGTCTATAGCGGCATTTGAT-GAAAAGCGCCGCTAAAG
566420 GTCGTGGTCT
Statistics
Matches: 100, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
115 16 0.16
116 28 0.28
117 41 0.41
118 15 0.15
ACGTcount: A:0.26, C:0.11, G:0.25, T:0.38
Consensus pattern (114 bp):
TATTTGATTAAAATAATTTTTTTAAAGGTTAGGTTTTTAGCGGCGTTTTTGCGAGAAGCGCCGCT
AAAGGTGTGGTCTATAGCGGCATTTGATGAAAAGCGCCGCTAAAGATAT
Found at i:566464 original size:43 final size:42
Alignment explanation
Indices: 566343--566484 Score: 212
Period size: 42 Copynumber: 3.3 Consensus size: 42
566333 AGGTTAGGTT
* *
566343 TTTAGCGGCGTTTTTTGCGAGAAGCGCCGCTAAAGGTCGTGGTC
1 TTTAGCGGCG-TTTGT-CGAAAAGCGCCGCTAAAGGTCGTGGTC
*
566387 TATAGCGGCGTTTGTCGAAAAGCGCCGCTAAAGGTCGTGGTC
1 TTTAGCGGCGTTTGTCGAAAAGCGCCGCTAAAGGTCGTGGTC
* *
566429 TTTAGCGGCGTTTGTCAGAAAAGCGCCGCTAAAGGTTGTGATC
1 TTTAGCGGCGTTTGTC-GAAAAGCGCCGCTAAAGGTCGTGGTC
566472 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
566485 TTTTCTAAAA
Statistics
Matches: 91, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
42 41 0.45
43 41 0.45
44 9 0.10
ACGTcount: A:0.19, C:0.20, G:0.32, T:0.29
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTCGAAAAGCGCCGCTAAAGGTCGTGGTC
Found at i:567322 original size:200 final size:200
Alignment explanation
Indices: 566979--567379 Score: 793
Period size: 200 Copynumber: 2.0 Consensus size: 200
566969 TCTAGTATAA
*
566979 TATAGTTAATTCTTTATTTGCTATAAATTATATATATAAACTAAATGAAAAGTAACATAGTACAA
1 TATAGTTAATTATTTATTTGCTATAAATTATATATATAAACTAAATGAAAAGTAACATAGTACAA
567044 ACTTGAAAGCTAGTCAGACCATGTCGGACTTGTTTGAAGCGGTGACAATTTGATCATAGAAGGGA
66 ACTTGAAAGCTAGTCAGACCATGTCGGACTTGTTTGAAGCGGTGACAATTTGATCATAGAAGGGA
567109 AAAATGTATGACCTTTTTATATAAGAGAGGTTTTTTTTGAGTGCAGATTTTGAAAATATAGGGCA
131 AAAATGTATGACCTTTTTATATAAGAGAGGTTTTTTTTGAGTGCAGATTTTGAAAATATAGGGCA
567174 CTGCG
196 CTGCG
567179 TATAGTTAATTATTTATTTGCTATAAATTATATATATAAACTAAATGAAAAGTAACATAGTACAA
1 TATAGTTAATTATTTATTTGCTATAAATTATATATATAAACTAAATGAAAAGTAACATAGTACAA
567244 ACTTGAAAGCTAGTCAGACCATGTCGGACTTGTTTGAAGCGGTGACAATTTGATCATAGAAGGGA
66 ACTTGAAAGCTAGTCAGACCATGTCGGACTTGTTTGAAGCGGTGACAATTTGATCATAGAAGGGA
567309 AAAATGTATGACCTTTTTATATAAGAGAGGTTTTTTTTGAGTGCAGATTTTGAAAATATAGGGCA
131 AAAATGTATGACCTTTTTATATAAGAGAGGTTTTTTTTGAGTGCAGATTTTGAAAATATAGGGCA
567374 CTGCG
196 CTGCG
567379 T
1 T
567380 CCATGGAAAT
Statistics
Matches: 200, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 200 1.00
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.34
Consensus pattern (200 bp):
TATAGTTAATTATTTATTTGCTATAAATTATATATATAAACTAAATGAAAAGTAACATAGTACAA
ACTTGAAAGCTAGTCAGACCATGTCGGACTTGTTTGAAGCGGTGACAATTTGATCATAGAAGGGA
AAAATGTATGACCTTTTTATATAAGAGAGGTTTTTTTTGAGTGCAGATTTTGAAAATATAGGGCA
CTGCG
Found at i:569083 original size:26 final size:26
Alignment explanation
Indices: 569037--569098 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 26
569027 TTGAATTTAT
* *
569037 TTATGTTTAACAATTATAATTAATAA
1 TTATTTTTAACAAATATAATTAATAA
* *
569063 TTATTTTTAACTAAATA-AATTTATAT
1 TTATTTTTAAC-AAATATAATTAATAA
*
569089 TTGTTTTTAA
1 TTATTTTTAA
569099 AACCCTCAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 26 0.87
27 4 0.13
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (26 bp):
TTATTTTTAACAAATATAATTAATAA
Found at i:576277 original size:34 final size:34
Alignment explanation
Indices: 576234--576444 Score: 217
Period size: 34 Copynumber: 6.1 Consensus size: 34
576224 AAATAATACC
*
576234 AGAAATGATGTATGAACAGGAGAGATTCCCTGCA
1 AGAAATGATGTGTGAACAGGAGAGATTCCCTGCA
* *
576268 AGAAATGATGTGTGAACATGAGAGATTCTCTGCA
1 AGAAATGATGTGTGAACAGGAGAGATTCCCTGCA
* * ** * * *
576302 ACAAAATAATACGTGAACAGGAAATAGTCCCTGCA
1 A-GAAATGATGTGTGAACAGGAGAGATTCCCTGCA
** * *
576337 AGAAATGATACGTGAACAAGAAAGATTCCCTGCA
1 AGAAATGATGTGTGAACAGGAGAGATTCCCTGCA
576371 AGAAATGATGTGTGAACAGGAGAGATTCCCTGCA
1 AGAAATGATGTGTGAACAGGAGAGATTCCCTGCA
* * * * *
576405 ACAAAAT-ACTGCGTGAACAAGAAATATTCCCTGCA
1 A-GAAATGA-TGTGTGAACAGGAGAGATTCCCTGCA
576440 AGAAA
1 AGAAA
576445 AGACAGGTGA
Statistics
Matches: 147, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
34 95 0.65
35 52 0.35
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.20
Consensus pattern (34 bp):
AGAAATGATGTGTGAACAGGAGAGATTCCCTGCA
Found at i:576363 original size:69 final size:68
Alignment explanation
Indices: 576246--576445 Score: 231
Period size: 69 Copynumber: 2.9 Consensus size: 68
576236 AAATGATGTA
* * * *
576246 TGAACAGGAGAGATTCCCTGCAAGAAATGATGTGTGAACATGAGAGATTCTCTGCAACAAAATAA
1 TGAACAGGAGAGATTCCCTGCAAGAAATGATGCGTGAACAAGAAAGATTCCCTGCAA-AAAATAA
576311 TACG
65 TACG
* * * * * *
576315 TGAACAGGAAATAGTCCCTGCAAGAAATGATACGTGAACAAGAAAGATTCCCTGCAAGAAATGAT
1 TGAACAGGAGAGATTCCCTGCAAGAAATGATGCGTGAACAAGAAAGATTCCCTGCAAAAAATAAT
**
576380 GTG
66 ACG
* *
576383 TGAACAGGAGAGATTCCCTGCAACAAAAT-ACTGCGTGAACAAGAAATATTCCCTGCAAGAAAA
1 TGAACAGGAGAGATTCCCTGCAA-GAAATGA-TGCGTGAACAAGAAAGATTCCCTGCAA-AAAA
576446 GACAGGTGAA
Statistics
Matches: 109, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
68 28 0.26
69 78 0.72
70 3 0.03
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.20
Consensus pattern (68 bp):
TGAACAGGAGAGATTCCCTGCAAGAAATGATGCGTGAACAAGAAAGATTCCCTGCAAAAAATAAT
ACG
Found at i:576420 original size:103 final size:103
Alignment explanation
Indices: 576246--576444 Score: 326
Period size: 103 Copynumber: 1.9 Consensus size: 103
576236 AAATGATGTA
* * * *
576246 TGAACAGGAGAGATTCCCTGCAAGAAATGATGTGTGAACATGAGAGATTCTCTGCAACAAAATAA
1 TGAACAAGAAAGATTCCCTGCAAGAAATGATGTGTGAACAGGAGAGATTCCCTGCAACAAAATAA
*
576311 TACGTGAACAGGAAATAGTCCCTGCAAGAAATGATACG
66 TACGTGAACAAGAAATAGTCCCTGCAAGAAATGATACG
*
576349 TGAACAAGAAAGATTCCCTGCAAGAAATGATGTGTGAACAGGAGAGATTCCCTGCAACAAAATAC
1 TGAACAAGAAAGATTCCCTGCAAGAAATGATGTGTGAACAGGAGAGATTCCCTGCAACAAAATAA
* *
576414 TGCGTGAACAAGAAATATTCCCTGCAAGAAA
66 TACGTGAACAAGAAATAGTCCCTGCAAGAAA
576445 AGACAGGTGA
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
103 88 1.00
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.20
Consensus pattern (103 bp):
TGAACAAGAAAGATTCCCTGCAAGAAATGATGTGTGAACAGGAGAGATTCCCTGCAACAAAATAA
TACGTGAACAAGAAATAGTCCCTGCAAGAAATGATACG
Found at i:576709 original size:14 final size:13
Alignment explanation
Indices: 576682--576719 Score: 67
Period size: 14 Copynumber: 2.8 Consensus size: 13
576672 AGTTTCCAAA
576682 TTTTCAAATTAAG
1 TTTTCAAATTAAG
576695 TTTTCAAACTTAAG
1 TTTTCAAA-TTAAG
576709 TTTTCAAATTA
1 TTTTCAAATTA
576720 CAAATATCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (13 bp):
TTTTCAAATTAAG
Found at i:579316 original size:318 final size:318
Alignment explanation
Indices: 578736--579350 Score: 1131
Period size: 318 Copynumber: 1.9 Consensus size: 318
578726 TTCCAAAAAC
* ** *
578736 TTTCCAAAAATCCCAAAATGAATTCGTAACAAAAATCCAAAATAGACGTAATGCTTTGGAAAGCT
1 TTTCCAAAAATCCCAAAATGAATTCCTAACAAAAATAAAAAATAGACGTAATGATTTGGAAAGCT
* *
578801 ACAAGTTTGAATTAATTGCCCTTGATACCCCAATACAAACCCAGTATTCAGTAAATACATTACAC
66 ACAAGTTTGAATTAATTGCCCCTGATACCCCAATACAAACCCAATATTCAGTAAATACATTACAC
578866 CAATCTTCCCAATCTGACTCGGATCAGTCAGATGAACAACAAATTAACAAGATGGCTTGGAAAGA
131 CAATCTTCCCAATCTGACTCGGATCAGTCAGATGAACAACAAATTAACAAGATGGCTTGGAAAGA
**
578931 ACCAAAAATATTATATTATCCAAAAATCACTGCACCTGATCTTAACATAGAAGAAAAACTTGTTT
196 ACCAAAAATATTATATTATCCAAAAATCACTGCACCTGATCTTAACATAGAAGAAAAACCCGTTT
578996 TCCAAAATAAATACAATGCTAATACAATCTATGAATGGAATATAGATGGAAAACTTGT
261 TCCAAAATAAATACAATGCTAATACAATCTATGAATGGAATATAGATGGAAAACTTGT
*
579054 TTTCCAAAAATCCCAAAATGAATTCCTAACAGAAATAAAAAATAGACGTAATGATTTGGAAAGCT
1 TTTCCAAAAATCCCAAAATGAATTCCTAACAAAAATAAAAAATAGACGTAATGATTTGGAAAGCT
579119 ACAAGTTTGAATTAATTGCCCCTGATACCCCAATACAAACCCAATATTCAGTAAATACATTACAC
66 ACAAGTTTGAATTAATTGCCCCTGATACCCCAATACAAACCCAATATTCAGTAAATACATTACAC
*
579184 CAATCTTCCCAATCTGACTCGGATCAGTTAGATGAACAACAAATTAACAAGATGGCTTGGAAAGA
131 CAATCTTCCCAATCTGACTCGGATCAGTCAGATGAACAACAAATTAACAAGATGGCTTGGAAAGA
*
579249 ACCAAAAATATTATATTATCCAAAAATCACTGCACCTGATCTTCACATAGAAGAAAAACCCGTTT
196 ACCAAAAATATTATATTATCCAAAAATCACTGCACCTGATCTTAACATAGAAGAAAAACCCGTTT
579314 TCCAAAATAAATACAATGCTAATACAATCTATGAATG
261 TCCAAAATAAATACAATGCTAATACAATCTATGAATG
579351 NNNNNNNNNN
Statistics
Matches: 286, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
318 286 1.00
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.26
Consensus pattern (318 bp):
TTTCCAAAAATCCCAAAATGAATTCCTAACAAAAATAAAAAATAGACGTAATGATTTGGAAAGCT
ACAAGTTTGAATTAATTGCCCCTGATACCCCAATACAAACCCAATATTCAGTAAATACATTACAC
CAATCTTCCCAATCTGACTCGGATCAGTCAGATGAACAACAAATTAACAAGATGGCTTGGAAAGA
ACCAAAAATATTATATTATCCAAAAATCACTGCACCTGATCTTAACATAGAAGAAAAACCCGTTT
TCCAAAATAAATACAATGCTAATACAATCTATGAATGGAATATAGATGGAAAACTTGT
Found at i:583314 original size:27 final size:26
Alignment explanation
Indices: 583284--583334 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
583274 ATGAAATTCT
*
583284 TACAAA-CAACATGATTGATTAACAATA
1 TACAAAGCAA-ATGA-TGAATAACAATA
583311 TACAAAGCAAATGATGAATAACAA
1 TACAAAGCAAATGATGAATAACAA
583335 ATTAATTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 9 0.41
27 10 0.45
28 3 0.14
ACGTcount: A:0.55, C:0.14, G:0.10, T:0.22
Consensus pattern (26 bp):
TACAAAGCAAATGATGAATAACAATA
Done.